首页 > 最新文献

Journal of Sustainable Agriculture and Environment最新文献

英文 中文
Ecological and evolutionary inferences from aphid microbiome analyses depend on methods and experimental design 从蚜虫微生物组分析中得出生态和进化推论取决于方法和实验设计
Pub Date : 2023-11-15 DOI: 10.1002/sae2.12087
Adrian Wolfgang, Ayco J. M. Tack, Gabriele Berg, Ahmed Abdelfattah

Introduction

Aphids play an important role in agroecological contexts as pests and vectors of plant diseases. Aphid performance is closely connected to microbial endosymbionts that provide different benefits or costs to both the aphids and their hosts plants. Furthermore, the microbiome of aphids is connected to soil microbiomes via the plant. Aphid microbiome experiments usually include a pooling step, where several individuals are sequenced together to obtain sufficient DNA concentrations but pooling may blur intraspecific variations.

Materials and Methods

To investigate the effects of sequencing single versus pooled aphids on the results of microbiome analyses, we compared 16S rRNA/ITS amplicon libraries from pooled and single oak aphids (Tuberculatus annulatus HARTIG) under three different soil treatments. We tested whether results quantitatively or qualitatively depend on pooling aphids, prevalence-based in silico filtering or removal of the primary endosymbiont (Buchnera aphidicola). Buchnera phylogeny, prevalence and abundance of secondary endosymbionts and effects of soil microbiota were investigated.

Results

Pooling leads to quantitative differences in bacteria and qualitative differences in fungal species richness, bacterial community composition and partially fungal community composition. Filtering-dependent results were obtained for bacterial evenness. Buchnera phylogeny supports the hypothesis of cospeciation of primary endosymbionts in oak aphids. We detected Arsenophonus, Hamiltonella, Rickettsia, Rickettsiella, Serratia and Sphingopyxis in oak aphids, with their prevalence and abundance partially affected by pooling. Pooling leads to overestimating the frequency of multispecies endosymbiont infections, while underestimating their relative abundance.

Conclusion

We hereby extend our view on non-model aphid microbiomes and identify pitfalls in experimental design in aphid microbiome research.

引言 作为害虫和植物病害的传播媒介,蚜虫在农业生态环境中发挥着重要作用。蚜虫的表现与微生物内共生体密切相关,这些内共生体为蚜虫及其寄主植物提供不同的益处或成本。此外,蚜虫的微生物组通过植物与土壤微生物组相连。蚜虫微生物组实验通常包括一个汇集步骤,即几个个体一起测序以获得足够的 DNA 浓度,但汇集可能会模糊种内差异。 材料与方法 为了研究单个蚜虫测序与集合蚜虫测序对微生物组分析结果的影响,我们比较了三种不同土壤处理下集合栎蚜和单个栎蚜(Tuberculatus annulatus HARTIG)的 16S rRNA/ITS 扩增子文库。我们测试了结果的定量或定性是否取决于汇集蚜虫、基于流行率的硅学过滤或去除主要内共生体(Buchnera aphidicola)。研究了蚜虫系统发育、次生内共生体的流行率和丰度以及土壤微生物群的影响。 结果 汇集导致细菌数量上的差异以及真菌物种丰富度、细菌群落组成和部分真菌群落组成的质量差异。细菌均匀度的结果与过滤有关。Buchnera 系统发育支持橡树蚜主要内生菌共生的假说。我们在橡树蚜虫中检测到了阿森菌、哈密尔顿菌、立克次体、立克次氏体、沙雷氏菌和鞘翅目蚜虫,它们的流行率和丰度部分受到了汇集的影响。汇集会导致高估多物种内共生体感染的频率,同时低估其相对丰度。 结论 我们在此扩展了我们对非模式蚜虫微生物组的看法,并指出了蚜虫微生物组研究中实验设计的误区。
{"title":"Ecological and evolutionary inferences from aphid microbiome analyses depend on methods and experimental design","authors":"Adrian Wolfgang,&nbsp;Ayco J. M. Tack,&nbsp;Gabriele Berg,&nbsp;Ahmed Abdelfattah","doi":"10.1002/sae2.12087","DOIUrl":"https://doi.org/10.1002/sae2.12087","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <h3> Introduction</h3>\u0000 \u0000 <p>Aphids play an important role in agroecological contexts as pests and vectors of plant diseases. Aphid performance is closely connected to microbial endosymbionts that provide different benefits or costs to both the aphids and their hosts plants. Furthermore, the microbiome of aphids is connected to soil microbiomes via the plant. Aphid microbiome experiments usually include a pooling step, where several individuals are sequenced together to obtain sufficient DNA concentrations but pooling may blur intraspecific variations.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Materials and Methods</h3>\u0000 \u0000 <p>To investigate the effects of sequencing single versus pooled aphids on the results of microbiome analyses, we compared 16S rRNA/ITS amplicon libraries from pooled and single oak aphids (<i>Tuberculatus annulatus</i> HARTIG) under three different soil treatments. We tested whether results quantitatively or qualitatively depend on pooling aphids, prevalence-based in silico filtering or removal of the primary endosymbiont (<i>Buchnera aphidicola</i>). <i>Buchnera</i> phylogeny, prevalence and abundance of secondary endosymbionts and effects of soil microbiota were investigated.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Results</h3>\u0000 \u0000 <p>Pooling leads to quantitative differences in bacteria and qualitative differences in fungal species richness, bacterial community composition and partially fungal community composition. Filtering-dependent results were obtained for bacterial evenness. <i>Buchnera</i> phylogeny supports the hypothesis of cospeciation of primary endosymbionts in oak aphids. We detected <i>Arsenophonus</i>, <i>Hamiltonella</i>, <i>Rickettsia</i>, <i>Rickettsiella</i>, <i>Serratia</i> and <i>Sphingopyxis</i> in oak aphids, with their prevalence and abundance partially affected by pooling. Pooling leads to overestimating the frequency of multispecies endosymbiont infections, while underestimating their relative abundance.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Conclusion</h3>\u0000 \u0000 <p>We hereby extend our view on non-model aphid microbiomes and identify pitfalls in experimental design in aphid microbiome research.</p>\u0000 </section>\u0000 </div>","PeriodicalId":100834,"journal":{"name":"Journal of Sustainable Agriculture and Environment","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-11-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/sae2.12087","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138571056","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Significant opportunities for tree crop expansion on marginal lands in the Midwest, USA 在美国中西部贫瘠土地上推广林木作物的重大机遇
Pub Date : 2023-11-13 DOI: 10.1002/sae2.12080
Bhuwan Thapa, Sarah Lovell, Ronald Revord, Phillip Owens, Michael Gold, Nicholas Meier

Introduction

Tree crop orchards can help diversify the monocropping practices in agricultural lands such as the Midwestern region of the United States which is currently dominated by corn-soybean rotation. These crops can not only expand farm income but also help stabilize soil, purify water, and provide other ecosystem services. Despite these benefits, tree crops as agroforestry systems are not widely established in the region. Identifying marginal land that is more suitable for tree crops over row crops can help the growers and the environment.

Materials and Methods

Using the case of Missouri, USA, this study mapped marginal land for nut-producing tree crops using a three-step process. The first step includes the identification of marginal land suitable for a wide variety of tree crops. The second step involved GIS-based multicriteria analysis of biophysically suitable areas for three commercially viable tree species, that is, eastern black walnut, pecan, and Chinese chestnut. The final step maps the marginal land for tree crops based on their suitability to grow under different environmental vulnerabilities, mainly flooding, erosion, and sloped conditions. The Gridded Soil Survey Geographic Database developed by the United States Department of Agriculture provided information on soil biophysical and environmental characteristics.

Results

The spatial analysis showed that Missouri has around 16,000 sq. km of land suitable for Black walnut, followed by 10,801 sq. km and 4587 sq. km for pecan and Chinese chestnut, respectively. The study found very few tree crop orchards on these marginal lands.

Conclusion

There are ample opportunities to expand tree crops on marginal cropland. Converting these lands to tree crops could provide communities with economic, human health, and environmental benefits. This multistep methodology could serve as a screening tool to identify tree-cropping areas for environmental improvement and rural America's economic revitalization.

引言 在美国中西部地区等目前以玉米-大豆轮作为主的农田中,林木作物果园有助于实现单一作物种植方式的多样化。这些作物不仅可以增加农业收入,还有助于稳定土壤、净化水质和提供其他生态系统服务。尽管有这些好处,但作为农林业系统的树木作物在该地区并没有得到广泛种植。确定哪些贫瘠土地更适合种植树木作物而非行列作物,对种植者和环境都有帮助。 材料与方法 本研究以美国密苏里州为例,采用三步法绘制了生产坚果的林木作物边缘土地图。第一步包括确定适合种植各种林木作物的边缘土地。第二步是基于地理信息系统(GIS)的多标准分析,从生物物理角度分析适合种植三种具有商业价值的树种(即东部黑胡桃、山核桃和中国板栗)的区域。最后一步是根据树类作物在不同环境(主要是洪水、侵蚀和坡地条件)下的生长适宜性,绘制树类作物的边缘土地地图。美国农业部开发的网格土壤调查地理数据库提供了有关土壤生物物理和环境特征的信息。 结果 空间分析表明,密苏里州约有 1.6 万平方公里的土地适合种植黑胡桃,其次是山核桃和中国板栗,面积分别为 10801 平方公里和 4587 平方公里。研究发现,这些边缘土地上的林木作物果园很少。 结论 在贫瘠耕地上扩大林木作物种植面积的机会很多。将这些土地改种树木作物可为社区带来经济、人类健康和环境效益。这种多步骤方法可作为一种筛选工具,用于确定林木作物种植区,以改善环境和振兴美国农村经济。
{"title":"Significant opportunities for tree crop expansion on marginal lands in the Midwest, USA","authors":"Bhuwan Thapa,&nbsp;Sarah Lovell,&nbsp;Ronald Revord,&nbsp;Phillip Owens,&nbsp;Michael Gold,&nbsp;Nicholas Meier","doi":"10.1002/sae2.12080","DOIUrl":"10.1002/sae2.12080","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <h3> Introduction</h3>\u0000 \u0000 <p>Tree crop orchards can help diversify the monocropping practices in agricultural lands such as the Midwestern region of the United States which is currently dominated by corn-soybean rotation. These crops can not only expand farm income but also help stabilize soil, purify water, and provide other ecosystem services. Despite these benefits, tree crops as agroforestry systems are not widely established in the region. Identifying marginal land that is more suitable for tree crops over row crops can help the growers and the environment.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Materials and Methods</h3>\u0000 \u0000 <p>Using the case of Missouri, USA, this study mapped marginal land for nut-producing tree crops using a three-step process. The first step includes the identification of marginal land suitable for a wide variety of tree crops. The second step involved GIS-based multicriteria analysis of biophysically suitable areas for three commercially viable tree species, that is, eastern black walnut, pecan, and Chinese chestnut. The final step maps the marginal land for tree crops based on their suitability to grow under different environmental vulnerabilities, mainly flooding, erosion, and sloped conditions. The Gridded Soil Survey Geographic Database developed by the United States Department of Agriculture provided information on soil biophysical and environmental characteristics.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Results</h3>\u0000 \u0000 <p>The spatial analysis showed that Missouri has around 16,000 sq. km of land suitable for Black walnut, followed by 10,801 sq. km and 4587 sq. km for pecan and Chinese chestnut, respectively. The study found very few tree crop orchards on these marginal lands.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Conclusion</h3>\u0000 \u0000 <p>There are ample opportunities to expand tree crops on marginal cropland. Converting these lands to tree crops could provide communities with economic, human health, and environmental benefits. This multistep methodology could serve as a screening tool to identify tree-cropping areas for environmental improvement and rural America's economic revitalization.</p>\u0000 </section>\u0000 </div>","PeriodicalId":100834,"journal":{"name":"Journal of Sustainable Agriculture and Environment","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-11-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/sae2.12080","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"136351545","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Forest restoration decouple soil C:N:P stoichiometry but has little effects on microbial biodiversity globally 森林恢复使土壤 C:N:P 的化学计量脱钩,但对全球微生物生物多样性影响甚微
Pub Date : 2023-11-10 DOI: 10.1002/sae2.12084
Ximei Han, Kaiyan Zhai, Shengen Liu, Hongyang Chen, Yanghui He, Zhenggang Du, Ruiqiang Liu, Dingqin Liu, Lingyan Zhou, Xuhui Zhou, Guiyao Zhou

Introduction

Forest restoration is an effective way to promote ecosystem functions and mitigate climate change. However, how forest restoration affect soil C:N:P stoichiometry and microbial biodiversity, as well as their linkage across contrasting forest types globally remains largely illusive.

Materials and Methods

Here we conducted a global meta-analysis by synthesizing 121 published papers with 1649 observations to explore how forest restoration affect soil C:N:P stoichiometry and microbial biodiversity globally.

Results

Forest restoration significantly increased soil total carbon (C), nitrogen (N) and phosphorus (P) content, whereas having no significant impact on most microbial diversity indicator, except for an enhancement in bacterial operational taxonomic unit and fungal Simpson. Meanwhile, forest restoration effects on soil C:N:P stoichiometry varied with different forest types, with promoting more soil C and P in ectomycorrhizal than those in arbuscular mycorrhizal forests. Meanwhile, forest restoration induced changes in soil N and P were positively correlated with microbial Shannon index. More importantly, forest restoration effects on soil C:N:P stoichiometry and microbial biodiversity were regulated by climate factors such as mean annual temperature and mean annual precipitation.

Conclusion

Our results highlight the crucial role of forest restoration in decoupling the biogeochemical cycles of C, N and P through changes in microbial biodiversity. Therefore, incorporating the decouple effects of forest restoration on soil C:N:P stoichiometry into Earth system models may improve predictions of climate–forest feedbacks in the Anthropocene.

引言 森林恢复是促进生态系统功能和减缓气候变化的有效方法。然而,森林恢复如何影响土壤中 C:N:P 的化学计量和微生物生物多样性,以及它们在全球不同森林类型中的联系,在很大程度上仍然是个谜。 材料与方法 我们综合了 121 篇已发表的论文和 1649 项观测数据,进行了一项全球荟萃分析,以探讨森林恢复如何影响全球土壤 C:N:P 的化学计量和微生物生物多样性。 结果 森林恢复明显增加了土壤总碳(C)、氮(N)和磷(P)的含量,但对大多数微生物多样性指标没有明显影响,只是提高了细菌操作分类单元和真菌辛普森的含量。同时,森林恢复对土壤C:N:P化学计量的影响因森林类型的不同而不同,外生菌根森林中的土壤C和P的促进作用大于丛枝菌根森林中的土壤C和P的促进作用。同时,森林恢复引起的土壤氮和磷的变化与微生物香农指数呈正相关。更重要的是,森林恢复对土壤 C:N:P 化学计量和微生物生物多样性的影响受气候因素(如年平均气温和年平均降水量)的调节。 结论 我们的研究结果凸显了森林恢复在通过微生物生物多样性变化实现碳、氮、磷生物地球化学循环脱钩方面的关键作用。因此,将森林恢复对土壤 C:N:P 化学计量的解耦效应纳入地球系统模型,可以改善人类世气候-森林反馈的预测。
{"title":"Forest restoration decouple soil C:N:P stoichiometry but has little effects on microbial biodiversity globally","authors":"Ximei Han,&nbsp;Kaiyan Zhai,&nbsp;Shengen Liu,&nbsp;Hongyang Chen,&nbsp;Yanghui He,&nbsp;Zhenggang Du,&nbsp;Ruiqiang Liu,&nbsp;Dingqin Liu,&nbsp;Lingyan Zhou,&nbsp;Xuhui Zhou,&nbsp;Guiyao Zhou","doi":"10.1002/sae2.12084","DOIUrl":"10.1002/sae2.12084","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <h3> Introduction</h3>\u0000 \u0000 <p>Forest restoration is an effective way to promote ecosystem functions and mitigate climate change. However, how forest restoration affect soil C:N:P stoichiometry and microbial biodiversity, as well as their linkage across contrasting forest types globally remains largely illusive.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Materials and Methods</h3>\u0000 \u0000 <p>Here we conducted a global meta-analysis by synthesizing 121 published papers with 1649 observations to explore how forest restoration affect soil C:N:P stoichiometry and microbial biodiversity globally.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Results</h3>\u0000 \u0000 <p>Forest restoration significantly increased soil total carbon (C), nitrogen (N) and phosphorus (P) content, whereas having no significant impact on most microbial diversity indicator, except for an enhancement in bacterial operational taxonomic unit and fungal Simpson. Meanwhile, forest restoration effects on soil C:N:P stoichiometry varied with different forest types, with promoting more soil C and P in ectomycorrhizal than those in arbuscular mycorrhizal forests. Meanwhile, forest restoration induced changes in soil N and P were positively correlated with microbial Shannon index. More importantly, forest restoration effects on soil C:N:P stoichiometry and microbial biodiversity were regulated by climate factors such as mean annual temperature and mean annual precipitation.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Conclusion</h3>\u0000 \u0000 <p>Our results highlight the crucial role of forest restoration in decoupling the biogeochemical cycles of C, N and P through changes in microbial biodiversity. Therefore, incorporating the decouple effects of forest restoration on soil C:N:P stoichiometry into Earth system models may improve predictions of climate–forest feedbacks in the Anthropocene.</p>\u0000 </section>\u0000 </div>","PeriodicalId":100834,"journal":{"name":"Journal of Sustainable Agriculture and Environment","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-11-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/sae2.12084","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135186595","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Evidence of distinct response of soil viral community to a plant infection and the disease pathobiome 土壤病毒群落对植物感染和疾病病原生物群落不同反应的证据
Pub Date : 2023-11-09 DOI: 10.1002/sae2.12079
Zhen-Zhen Yan, Juntao Wang, Jinsong Liang, Bruna D. Batista, Hongwei Liu, Chao Xiong, Simranjit Kaur, Catriona A. Macdonald, Brajesh K. Singh

Despite the abundance and ubiquity of viruses in terrestrial ecosystems, the roles of soil viruses in ecosystem functions and plant diseases remain understudied. Here, we used 42 pairs of bulk soil and rhizosphere samples collected from cotton fields with different Verticillium dahliae infection conditions to investigate the responses of soil viruses to soilborne fungal pathogen infections. We found that V. dahliae infection significantly impacted the characteristics of rhizosphere viral community but not bulk soil community. In addition, our results revealed that unlike current knowledge of the impacts of plant pathogens on soil bacterial and fungal communities, the soil viral community demonstrated a lower viral network vulnerability to infection. Importantly, we provided evidence that soil viruses are a potentially important component of the pathobiome of plant disease which may help pathogen invasion and promote disease symptoms. Our study highlights distinct response of viral community and has implications for future plant disease management and agricultural productivity.

尽管病毒在陆地生态系统中大量存在且无处不在,但土壤病毒在生态系统功能和植物病害中的作用仍未得到充分研究。在这里,我们利用从不同大丽轮枝菌感染条件下的棉田采集的 42 对散装土壤和根瘤菌样本,研究了土壤病毒对土传真菌病原体感染的反应。我们发现,大丽轮枝菌感染会显著影响根瘤菌病毒群落的特征,但不会影响土壤主体群落的特征。此外,我们的研究结果表明,与目前关于植物病原体对土壤细菌和真菌群落影响的知识不同,土壤病毒群落表现出较低的病毒网络感染脆弱性。重要的是,我们提供的证据表明,土壤病毒是植物病害病原生物群落的潜在重要组成部分,可能有助于病原体入侵并促进病害症状的出现。我们的研究凸显了病毒群落的独特反应,对未来植物病害管理和农业生产具有重要意义。
{"title":"Evidence of distinct response of soil viral community to a plant infection and the disease pathobiome","authors":"Zhen-Zhen Yan,&nbsp;Juntao Wang,&nbsp;Jinsong Liang,&nbsp;Bruna D. Batista,&nbsp;Hongwei Liu,&nbsp;Chao Xiong,&nbsp;Simranjit Kaur,&nbsp;Catriona A. Macdonald,&nbsp;Brajesh K. Singh","doi":"10.1002/sae2.12079","DOIUrl":"10.1002/sae2.12079","url":null,"abstract":"<p>Despite the abundance and ubiquity of viruses in terrestrial ecosystems, the roles of soil viruses in ecosystem functions and plant diseases remain understudied. Here, we used 42 pairs of bulk soil and rhizosphere samples collected from cotton fields with different <i>Verticillium dahliae</i> infection conditions to investigate the responses of soil viruses to soilborne fungal pathogen infections. We found that <i>V. dahliae</i> infection significantly impacted the characteristics of rhizosphere viral community but not bulk soil community. In addition, our results revealed that unlike current knowledge of the impacts of plant pathogens on soil bacterial and fungal communities, the soil viral community demonstrated a lower viral network vulnerability to infection. Importantly, we provided evidence that soil viruses are a potentially important component of the pathobiome of plant disease which may help pathogen invasion and promote disease symptoms. Our study highlights distinct response of viral community and has implications for future plant disease management and agricultural productivity.</p>","PeriodicalId":100834,"journal":{"name":"Journal of Sustainable Agriculture and Environment","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-11-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/sae2.12079","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135242776","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Exploring the connectivity between rhizosphere microbiomes and the plant genes: A way forward for sustainable increase in primary productivity 探索根圈微生物群与植物基因之间的联系:可持续提高初级生产力的出路
Pub Date : 2023-11-05 DOI: 10.1002/sae2.12081
Ayomide E. Fadiji, Rutwik Barmukh, Rajeev K. Varshney, Brajesh K. Singh

The plant genome and its microbiome act together to enhance survival and promote host growth under various stresses. Plant microbiome plays an important role in plant productivity via a multitude of mechanisms including provision of nutrients and resistance against different biotic and abiotic factors. However, the molecular mechanisms responsible for plant microbiome interactions remain largely unknown. Nevertheless, gaining a deeper understanding of the plant genetic traits driving microbiome recruitments and assembly holds the potential to greatly enhance our capacity to utilize the microbiome effectively, leading to sustainable improvements in agricultural productivity and produce quality. This article explores the mutual influence of specific plant genes in modulating the rhizosphere (area around plant roots) microbiome, and how this rhizosphere microbiome impacts the plant genes, ultimately enhancing plant health and productivity. It further examines the effects of various rhizosphere microbiota, including Bacillus, Pseudomonas, Azospirillum, Trichoderma spp., on plant development, immunology and the expression of host functional genes. We conclude that the adoption of a hologenomics approach (i.e., considering both the plant genome and the genomes of all microorganisms colonizing the plant) can significantly advance our understanding of plant resistance and resilience to biotic and abiotic stresses. This approach can offer improved solutions for agronomic challenges in the future. Furthermore, within this context, we identify key knowledge gaps within the discipline and propose frameworks that may be employed in the future to harness plant–microbial interactions effectively, leading to a sustainable increase in farm productivity.

植物基因组及其微生物组共同作用,提高宿主在各种压力下的存活率并促进宿主生长。植物微生物组通过多种机制在植物生产力中发挥着重要作用,包括提供养分和抵抗不同的生物和非生物因素。然而,植物微生物群相互作用的分子机制在很大程度上仍然未知。然而,更深入地了解驱动微生物组招募和组装的植物遗传特征,有可能大大提高我们有效利用微生物组的能力,从而可持续地提高农业生产率和农产品质量。本文探讨了特定植物基因在调节根圈(植物根部周围区域)微生物组方面的相互影响,以及根圈微生物组如何影响植物基因,最终提高植物健康和生产率。本研究进一步探讨了各种根圈微生物群(包括芽孢杆菌、假单胞菌、氮青霉、毛霉菌属)对植物生长发育、免疫学和宿主功能基因表达的影响。我们的结论是,采用全息组学方法(即同时考虑植物基因组和定植于植物的所有微生物的基因组)可以极大地促进我们对植物抗生物和非生物胁迫能力和恢复力的理解。这种方法可以为未来的农艺挑战提供更好的解决方案。此外,在这一背景下,我们确定了学科内的关键知识差距,并提出了未来可能采用的框架,以有效利用植物与微生物的相互作用,从而可持续地提高农业生产率。
{"title":"Exploring the connectivity between rhizosphere microbiomes and the plant genes: A way forward for sustainable increase in primary productivity","authors":"Ayomide E. Fadiji,&nbsp;Rutwik Barmukh,&nbsp;Rajeev K. Varshney,&nbsp;Brajesh K. Singh","doi":"10.1002/sae2.12081","DOIUrl":"10.1002/sae2.12081","url":null,"abstract":"<p>The plant genome and its microbiome act together to enhance survival and promote host growth under various stresses. Plant microbiome plays an important role in plant productivity via a multitude of mechanisms including provision of nutrients and resistance against different biotic and abiotic factors. However, the molecular mechanisms responsible for plant microbiome interactions remain largely unknown. Nevertheless, gaining a deeper understanding of the plant genetic traits driving microbiome recruitments and assembly holds the potential to greatly enhance our capacity to utilize the microbiome effectively, leading to sustainable improvements in agricultural productivity and produce quality. This article explores the mutual influence of specific plant genes in modulating the rhizosphere (area around plant roots) microbiome, and how this rhizosphere microbiome impacts the plant genes, ultimately enhancing plant health and productivity. It further examines the effects of various rhizosphere microbiota, including <i>Bacillus</i>, <i>Pseudomonas</i>, <i>Azospirillum</i>, <i>Trichoderma</i> spp., on plant development, immunology and the expression of host functional genes. We conclude that the adoption of a hologenomics approach (i.e., considering both the plant genome and the genomes of all microorganisms colonizing the plant) can significantly advance our understanding of plant resistance and resilience to biotic and abiotic stresses. This approach can offer improved solutions for agronomic challenges in the future. Furthermore, within this context, we identify key knowledge gaps within the discipline and propose frameworks that may be employed in the future to harness plant–microbial interactions effectively, leading to a sustainable increase in farm productivity.</p>","PeriodicalId":100834,"journal":{"name":"Journal of Sustainable Agriculture and Environment","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-11-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/sae2.12081","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135725795","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Molecular insights into the salt stress response of Pearl millet (Pennisetum glaucum): Pathways, differentially expressed genes and transcription factors 对珍珠粟(Pennisetum glaucum)盐胁迫响应的分子认识:途径、差异表达基因和转录因子
Pub Date : 2023-11-03 DOI: 10.1002/sae2.12083
Faten Dhawi

Introduction

Pearl millet (Pennisetum glaucum) plays a crucial role as a cereal crop in arid and semi-arid regions, where it confronts the formidable challenge of salt stress.

Materials and Methods

To unravel the underlying molecular mechanisms that underpin its salt stress resilience, we subjected 14-day-old seedlings to three distinct groups: Control, 75 mM NaCl and 150 mM NaCl. These pots received daily irrigation with their respective treatment solutions for a duration of 7 days. Following this week-long treatment, we measured plant chlorophyll content, as well as the fresh and dry weights of shoots and roots. It became evident that the saline treatment, particularly in the 150 mM NaCl group, had a more pronounced impact on both weight and chlorophyll content in comparison to the control group, surpassing the effects observed in the 75 mM NaCl group. Subsequently, we conducted RNA sequence analysis on the leaves of Pearl millet from both the control and 150 mM NaCl-treated groups.

Results

The results revealed that 27.6% of Pennisetum glaucum genes exhibited differential expression, with 3246 genes being upregulated and 7408 genes downregulated when compared to the control group. Principal component analysis underscored distinct variations in gene expression patterns between the control and salt-stressed groups. Pathway analysis sheds light on the upregulated differentially expressed genes (DEGs), highlighting their involvement in crucial pathways such as phytyl-PP biosynthesis, lysine degradation, glutamate biosynthesis, nitrate assimilation and DLO biosynthesis. Conversely, the downregulated DEGs were associated with pathways like coumarins biosynthesis, pinobanksin biosynthesis, UDP-d-glucuronate biosynthesis and cholesterol biosynthesis, among others. Furthermore, our transcription factor analysis unveiled specific families associated with the salt stress response, including bHLH, ERF, NAC, WRKY, bZIP, MYB and HD-ZIP.

Conclusions

These findings represent a significant advancement in our comprehension of Pearl millet's capacity to withstand salt stress and provide potential targets for the development of salt-resistant crops, contributing to the advancement of sustainable agriculture in regions affected by salinity.

引言 珍珠粟(Pennisetum glaucum)作为一种谷类作物在干旱和半干旱地区发挥着至关重要的作用,它面临着盐胁迫的严峻挑战。 材料与方法 为了揭示支撑其抗盐胁迫能力的潜在分子机制,我们将 14 天大的幼苗分为三组:对照组、75 mM NaCl 组和 150 mM NaCl 组。在为期 7 天的时间里,这些花盆每天都接受各自处理溶液的灌溉。经过一周的处理后,我们测量了植物的叶绿素含量以及芽和根的鲜重和干重。结果表明,与对照组相比,盐水处理(尤其是 150 mM NaCl 组)对重量和叶绿素含量的影响更为明显,超过了在 75 mM NaCl 组观察到的效果。随后,我们对对照组和 150 mM NaCl 处理组的珍珠米叶片进行了 RNA 序列分析。 结果表明,与对照组相比,27.6%的珍珠粟基因表现出差异表达,其中 3246 个基因上调,7408 个基因下调。主成分分析强调了对照组和盐胁迫组之间基因表达模式的明显差异。通路分析揭示了上调的差异表达基因(DEGs),突出表明它们参与了phytyl-PP 生物合成、赖氨酸降解、谷氨酸生物合成、硝酸盐同化和 DLO 生物合成等关键通路。相反,下调的 DEGs 与香豆素生物合成、蒎烷醇生物合成、UDP-d-葡萄糖醛酸生物合成和胆固醇生物合成等途径有关。此外,我们的转录因子分析揭示了与盐胁迫反应相关的特定家族,包括 bHLH、ERF、NAC、WRKY、bZIP、MYB 和 HD-ZIP。 结论 这些发现标志着我们在理解珍珠粟抵御盐胁迫能力方面取得了重大进展,并为开发抗盐作物提供了潜在目标,有助于促进受盐碱影响地区的可持续农业发展。
{"title":"Molecular insights into the salt stress response of Pearl millet (Pennisetum glaucum): Pathways, differentially expressed genes and transcription factors","authors":"Faten Dhawi","doi":"10.1002/sae2.12083","DOIUrl":"10.1002/sae2.12083","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <h3> Introduction</h3>\u0000 \u0000 <p>Pearl millet (<i>Pennisetum glaucum</i>) plays a crucial role as a cereal crop in arid and semi-arid regions, where it confronts the formidable challenge of salt stress.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Materials and Methods</h3>\u0000 \u0000 <p>To unravel the underlying molecular mechanisms that underpin its salt stress resilience, we subjected 14-day-old seedlings to three distinct groups: Control, 75 mM NaCl and 150 mM NaCl. These pots received daily irrigation with their respective treatment solutions for a duration of 7 days. Following this week-long treatment, we measured plant chlorophyll content, as well as the fresh and dry weights of shoots and roots. It became evident that the saline treatment, particularly in the 150 mM NaCl group, had a more pronounced impact on both weight and chlorophyll content in comparison to the control group, surpassing the effects observed in the 75 mM NaCl group. Subsequently, we conducted RNA sequence analysis on the leaves of Pearl millet from both the control and 150 mM NaCl-treated groups.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Results</h3>\u0000 \u0000 <p>The results revealed that 27.6% of <i>Pennisetum glaucum</i> genes exhibited differential expression, with 3246 genes being upregulated and 7408 genes downregulated when compared to the control group. Principal component analysis underscored distinct variations in gene expression patterns between the control and salt-stressed groups. Pathway analysis sheds light on the upregulated differentially expressed genes (DEGs), highlighting their involvement in crucial pathways such as phytyl-PP biosynthesis, lysine degradation, glutamate biosynthesis, nitrate assimilation and DLO biosynthesis. Conversely, the downregulated DEGs were associated with pathways like coumarins biosynthesis, pinobanksin biosynthesis, UDP-\u0000<span>d</span>-glucuronate biosynthesis and cholesterol biosynthesis, among others. Furthermore, our transcription factor analysis unveiled specific families associated with the salt stress response, including bHLH, ERF, NAC, WRKY, bZIP, MYB and HD-ZIP.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Conclusions</h3>\u0000 \u0000 <p>These findings represent a significant advancement in our comprehension of Pearl millet's capacity to withstand salt stress and provide potential targets for the development of salt-resistant crops, contributing to the advancement of sustainable agriculture in regions affected by salinity.</p>\u0000 </section>\u0000 </div>","PeriodicalId":100834,"journal":{"name":"Journal of Sustainable Agriculture and Environment","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-11-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/sae2.12083","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135821688","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Evaluation of 16S rRNA gene primer pairs for bacterial community profiling in an across soil and ryegrass plant study 在一项跨土壤和黑麦草植物研究中,对用于细菌群落分析的 16S rRNA 基因引物对进行评估
Pub Date : 2023-10-27 DOI: 10.1002/sae2.12075
Shengjing Shi, Sandeep Kumar, Sandra Young, Paul Maclean, Ruy Jauregui

Introduction

As microbes play important roles in many hosts and niches, linking microbiota across niches is becoming an important area of research. Studying microbiota across multiple niches would allow understanding of ecosystem-level interactions and potential points of better manipulation for agriculture gains. However, a suitable methodology to characterize microbiota from vast different niches is currently lacking. We used the plant shoot and soil as two important niches for this case study.

Materials and Methods

Considering the important linkage plant play in connecting above- and below-ground ecosystems and challenges of working with plant microbiota, we first compared three commonly used 16S ribosomal RNA gene primer pairs targeting V3–V4 or V5–V7 regions coupled with Illumina sequencing for bacterial communities associated with ryegrass shoot. Then the selected primer was used to amplify bacterial communities in soil and rhizosphere samples for comparison with the commonly used 338F/806R. Finally, core operational taxonomic units (OTUs) across soil and plant niches were identified.

Results

Primer pair 799F/1193R amplified the lowest number of plant organelle sequences (<0.2% of total sequences) and consistently showed the highest α-diversity compared with 338F/806R and 335F/769R. For soil and rhizosphere samples, 799F/1193R also demonstrated significantly higher α-diversity indices compared with 338F/806R. The bacterial phyla commonly detected by both primer pairs comprised >97% of the total relative abundance in soil and rhizosphere samples. In addition, the differences in bacterial communities of the soil and rhizosphere samples were more evident when using 799F/1193R than 338F/806R. Using the 799F/1193R data set, 50 core bacterial OTUs were identified across soil, rhizosphere and shoot niches, whereas only 38 core OTUs were identified when using 338F/806R. Most of these core OTUs were dominant in either shoot or soil niche.

Conclusion

Primer pair 799F/1193R is suitable for bacterial community studies targeting ryegrass plant and soil microbiota, in particular for cross-niches studies.

引言 由于微生物在许多宿主和生态位中发挥着重要作用,跨生态位的微生物区系联系正成为一个重要的研究领域。研究多个生态位中的微生物区系将有助于了解生态系统层面的相互作用,以及更好地操纵微生物区系以提高农业效益的潜在点。然而,目前还缺乏一种合适的方法来表征来自大量不同生态位的微生物群。我们将植物嫩枝和土壤作为本案例研究的两个重要壁龛。 材料与方法 考虑到植物在连接地上和地下生态系统中的重要作用,以及植物微生物区系研究的挑战,我们首先比较了三种常用的 16S 核糖体 RNA 基因引物对,分别针对 V3-V4 或 V5-V7 区域,并结合 Illumina 测序技术,研究与黑麦草嫩枝相关的细菌群落。然后用选定的引物扩增土壤和根圈样本中的细菌群落,与常用的 338F/806R 进行比较。最后,确定了土壤和植物壁龛中的核心操作分类单元(OTUs)。 结果 799F/1193R 引物对扩增出的植物细胞器序列数量最少(占总序列的 0.2%),与 338F/806R 和 335F/769R 相比,799F/1193R 始终显示出最高的 α 多样性。在土壤和根圈样本中,799F/1193R 的 α-多样性指数也明显高于 338F/806R。两种引物对共同检测到的细菌门类占土壤和根圈样本相对丰度总量的 97%。此外,与 338F/806R 相比,799F/1193R 在土壤和根圈样本中的细菌群落差异更为明显。使用 799F/1193R 数据集时,土壤、根瘤菌圈和嫩枝壁龛共鉴定出 50 个核心细菌 OTU,而使用 338F/806R 时仅鉴定出 38 个核心 OTU。这些核心 OTU 大多在嫩枝或土壤中占优势。 结论 799F/1193R 引物对适用于针对黑麦草植物和土壤微生物群落的细菌群落研究,尤其适用于跨生态位研究。
{"title":"Evaluation of 16S rRNA gene primer pairs for bacterial community profiling in an across soil and ryegrass plant study","authors":"Shengjing Shi,&nbsp;Sandeep Kumar,&nbsp;Sandra Young,&nbsp;Paul Maclean,&nbsp;Ruy Jauregui","doi":"10.1002/sae2.12075","DOIUrl":"10.1002/sae2.12075","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <h3> Introduction</h3>\u0000 \u0000 <p>As microbes play important roles in many hosts and niches, linking microbiota across niches is becoming an important area of research. Studying microbiota across multiple niches would allow understanding of ecosystem-level interactions and potential points of better manipulation for agriculture gains. However, a suitable methodology to characterize microbiota from vast different niches is currently lacking. We used the plant shoot and soil as two important niches for this case study.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Materials and Methods</h3>\u0000 \u0000 <p>Considering the important linkage plant play in connecting above- and below-ground ecosystems and challenges of working with plant microbiota, we first compared three commonly used 16S ribosomal RNA gene primer pairs targeting V3–V4 or V5–V7 regions coupled with Illumina sequencing for bacterial communities associated with ryegrass shoot. Then the selected primer was used to amplify bacterial communities in soil and rhizosphere samples for comparison with the commonly used 338F/806R. Finally, core operational taxonomic units (OTUs) across soil and plant niches were identified.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Results</h3>\u0000 \u0000 <p>Primer pair 799F/1193R amplified the lowest number of plant organelle sequences (&lt;0.2% of total sequences) and consistently showed the highest α-diversity compared with 338F/806R and 335F/769R. For soil and rhizosphere samples, 799F/1193R also demonstrated significantly higher α-diversity indices compared with 338F/806R. The bacterial phyla commonly detected by both primer pairs comprised &gt;97% of the total relative abundance in soil and rhizosphere samples. In addition, the differences in bacterial communities of the soil and rhizosphere samples were more evident when using 799F/1193R than 338F/806R. Using the 799F/1193R data set, 50 core bacterial OTUs were identified across soil, rhizosphere and shoot niches, whereas only 38 core OTUs were identified when using 338F/806R. Most of these core OTUs were dominant in either shoot or soil niche.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Conclusion</h3>\u0000 \u0000 <p>Primer pair 799F/1193R is suitable for bacterial community studies targeting ryegrass plant and soil microbiota, in particular for cross-niches studies.</p>\u0000 </section>\u0000 </div>","PeriodicalId":100834,"journal":{"name":"Journal of Sustainable Agriculture and Environment","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-10-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/sae2.12075","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"136234401","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Plant species and soil depth differentially affect microbial diversity and function in grasslands 植物种类和土壤深度对草地微生物多样性和功能的不同影响
Pub Date : 2023-10-20 DOI: 10.1002/sae2.12077
Kerry B. Ryan, Alexandre De Menezes, John A. Finn, Fiona P. Brennan

Introduction

Grassland ecosystems are a major store of terrestrial carbon (C), yet little is known about their capacity to cycle and store C in deeper soil horizons. Further, it is unclear how plant community composition within agricultural grasslands mediates this capacity and influences microbial community composition. We investigated whether the aboveground community composition in intensively managed agricultural grasslands influenced belowground microbial community composition, abundance, respiration and enzyme activities with depth.

Materials and Methods

Soil was sampled in four soil layers: A (0–15 cm), B (15–30 cm), C (30–60 cm) and D (60–90 cm) in monocultures of six grassland species and a mixture of all six. Functional capacity was measured through enzymatic and substrate-induced respiration assays, and microbial abundance and diversity were assessed via quantitative polymerase chain reaction and sequencing (16S, Internal transcribed spacer), respectively.

Results

Microbial abundance and C cycling enzyme activity decreased and community composition changed, along the soil depth gradient, regardless of the plant community. Microbial abundance was not significantly influenced by plant community type across the entire soil depth profile. However, prokaryotic community composition was significantly influenced by plant community in the top 15 cm of soil, and fungal community composition was significantly influenced between 15 and 30 cm in depth. Plant community types mediated the rate at which C cycling enzyme activity decreased along the soil depth gradient, and selected C cycling enzymes were significantly more active at 15–60 cm depth when Cichorium intybus (a deep rooting species) was present.

Conclusion

This study provides an improved understanding of how agricultural grassland communities affect the soil microbiome with depth; this has potential implications for the management of these systems for enhanced soil health. Our work indicates the potential for multispecies mixtures with deep rooting species to be a practical strategy to increase C cycling capacity in deeper soil layers within grasslands, which may have implications for policy goals related to C storage.

引言 草原生态系统是陆地碳(C)的主要储存地,但人们对其在较深的土壤层中循环和储存碳的能力知之甚少。此外,目前还不清楚农用草地中的植物群落组成如何介导这种能力并影响微生物群落组成。我们研究了集约化管理农用草地的地上群落组成是否会影响地下微生物群落组成、丰度、呼吸作用和酶活性。 材料与方法 在四个土层取样:A(0-15 厘米)、B(15-30 厘米)、C(30-60 厘米)和 D(60-90 厘米)四个土层分别取样于单一种植的六种草地物种和六种草地物种的混合物。功能能力通过酶法和底物诱导呼吸法进行测定,微生物丰度和多样性分别通过定量聚合酶链式反应和测序(16S,内部转录间隔)进行评估。 结果 沿土壤深度梯度,无论植物群落如何,微生物丰度和碳循环酶活性都有所下降,群落组成也发生了变化。在整个土壤深度剖面上,微生物丰度受植物群落类型的影响不大。然而,原核生物群落组成在土壤顶部 15 厘米处受植物群落影响较大,真菌群落组成在 15 至 30 厘米深度之间受植物群落影响较大。植物群落类型介导了碳循环酶活性沿土壤深度梯度下降的速度,当存在 Cichorium intybus(深根性物种)时,15-60 厘米深度的选定碳循环酶活性明显更高。 结论 本研究加深了人们对农用草地群落如何随深度影响土壤微生物组的理解;这对管理这些系统以增强土壤健康具有潜在影响。我们的工作表明,深根物种的多物种混合物有可能成为提高草地深层土壤碳循环能力的实用策略,这可能会对与碳储存有关的政策目标产生影响。
{"title":"Plant species and soil depth differentially affect microbial diversity and function in grasslands","authors":"Kerry B. Ryan,&nbsp;Alexandre De Menezes,&nbsp;John A. Finn,&nbsp;Fiona P. Brennan","doi":"10.1002/sae2.12077","DOIUrl":"10.1002/sae2.12077","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <h3> Introduction</h3>\u0000 \u0000 <p>Grassland ecosystems are a major store of terrestrial carbon (C), yet little is known about their capacity to cycle and store C in deeper soil horizons. Further, it is unclear how plant community composition within agricultural grasslands mediates this capacity and influences microbial community composition. We investigated whether the aboveground community composition in intensively managed agricultural grasslands influenced belowground microbial community composition, abundance, respiration and enzyme activities with depth.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Materials and Methods</h3>\u0000 \u0000 <p>Soil was sampled in four soil layers: A (0–15 cm), B (15–30 cm), C (30–60 cm) and D (60–90 cm) in monocultures of six grassland species and a mixture of all six. Functional capacity was measured through enzymatic and substrate-induced respiration assays, and microbial abundance and diversity were assessed via quantitative polymerase chain reaction and sequencing (16S, Internal transcribed spacer), respectively.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Results</h3>\u0000 \u0000 <p>Microbial abundance and C cycling enzyme activity decreased and community composition changed, along the soil depth gradient, regardless of the plant community. Microbial abundance was not significantly influenced by plant community type across the entire soil depth profile. However, prokaryotic community composition was significantly influenced by plant community in the top 15 cm of soil, and fungal community composition was significantly influenced between 15 and 30 cm in depth. Plant community types mediated the rate at which C cycling enzyme activity decreased along the soil depth gradient, and selected C cycling enzymes were significantly more active at 15–60 cm depth when <i>Cichorium intybus</i> (a deep rooting species) was present.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Conclusion</h3>\u0000 \u0000 <p>This study provides an improved understanding of how agricultural grassland communities affect the soil microbiome with depth; this has potential implications for the management of these systems for enhanced soil health. Our work indicates the potential for multispecies mixtures with deep rooting species to be a practical strategy to increase C cycling capacity in deeper soil layers within grasslands, which may have implications for policy goals related to C storage.</p>\u0000 </section>\u0000 </div>","PeriodicalId":100834,"journal":{"name":"Journal of Sustainable Agriculture and Environment","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-10-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/sae2.12077","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135617593","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Cool semi-arid cropping treatments alter Avena fatua's performance and competitive intensity 冷凉半干旱种植处理改变了莜麦的生长性能和竞争强度
Pub Date : 2023-10-20 DOI: 10.1002/sae2.12078
Christian D. Larson, Mei Ling Wong, Patrick M. Carr, Timothy Seipel

Introduction

Multiple herbicide-resistant Avena fatua L. is common in the Northern Great Plains, USA. This prevalence and the ecological impacts of tillage in this semi-arid agricultural region have created a need for integrated weed management, with a specific knowledge gap in using annual forage crops and targeted grazing for A. fatua suppression.

Materials and Methods

A 2-year study in central Montana, USA, assessed A. fatua performance (aboveground biomass, stem density and seed production) in response to seven cropping treatments: (1–4) tall and short spring wheat cultivars crossed with high and low seeding rates, (5–6) annual forage mixture terminated using sheep grazing and simulated haying and (7) tilled fallow. Avena fatua's competitive intensity in wheat and the annual forage mixture was determined using a relative competition intensity index.

Results

Avena fatua performance was lowest in tilled fallow, although stem density and seed production did not differ from the grazed annual forage treatment. Response variables were lower in the forage treatments compared with the wheat treatments, and there were no differences among the four fully crossed wheat treatments. Separate analysis of the wheat treatments indicated lower A. fatua biomass and stem density when wheat was sown at a higher rate with no impact of wheat height. Avena fatua competition impacted wheat and forage crops but was more intense for wheat.

Conclusion

Tillage was the most effective treatment at reducing A. fatua performance, but annual forage mixtures can be used to resist A. fatua invasion (reduced A. fatua competitive intensity) and limit its performance after invasion. We conclude that crop sequences that combine higher cash crop (wheat) seeding rates and competitive annual forage mixtures may be utilized to manage A. fatua invaded systems, thereby reducing heavy reliance on tillage in the US Northern Great Plains and similar semi-arid regions.

引言 在美国北部大平原,多种抗除草剂的莜麦(Avena fatua L.)很常见。在这个半干旱农业地区,这种普遍性和耕作对生态的影响产生了对综合杂草管理的需求,而在利用一年生饲料作物和有针对性的放牧来抑制 A. fatua 方面存在具体的知识差距。 材料与方法 在美国蒙大拿州中部进行了一项为期 2 年的研究,评估了 A. fatua 在 7 种耕作处理下的表现(地上生物量、茎密度和种子产量):(1-4)高矮春小麦品种与高低播种率杂交;(5-6)使用绵羊放牧和模拟打草终止一年生牧草混合物;(7)翻耕休耕。利用相对竞争强度指数确定了莜麦在小麦和一年生牧草混合物中的竞争强度。 结果 虽然茎秆密度和种子产量与放牧的一年生牧草处理没有差异,但在翻耕休耕中,莜麦的表现最低。与小麦处理相比,牧草处理的响应变量较低,四种完全杂交的小麦处理之间没有差异。对小麦处理进行的单独分析表明,当小麦播种率较高时,法桐生物量和茎密度较低,而小麦高度则没有影响。Avena fatua 的竞争对小麦和饲料作物都有影响,但对小麦的影响更大。 结论 翻耕是降低法桐表现的最有效处理方法,但一年生饲料混合物可用于抵御法桐入侵(降低法桐竞争强度)并限制其入侵后的表现。我们的结论是,在美国北部大平原和类似的半干旱地区,将较高的经济作物(小麦)播种率和具有竞争力的一年生牧草混合物结合起来的作物序列可用于管理法桐的入侵系统,从而减少对耕作的严重依赖。
{"title":"Cool semi-arid cropping treatments alter Avena fatua's performance and competitive intensity","authors":"Christian D. Larson,&nbsp;Mei Ling Wong,&nbsp;Patrick M. Carr,&nbsp;Timothy Seipel","doi":"10.1002/sae2.12078","DOIUrl":"10.1002/sae2.12078","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <h3> Introduction</h3>\u0000 \u0000 <p>Multiple herbicide-resistant <i>Avena fatua</i> L. is common in the Northern Great Plains, USA. This prevalence and the ecological impacts of tillage in this semi-arid agricultural region have created a need for integrated weed management, with a specific knowledge gap in using annual forage crops and targeted grazing for <i>A. fatua</i> suppression.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Materials and Methods</h3>\u0000 \u0000 <p>A 2-year study in central Montana, USA, assessed <i>A. fatua</i> performance (aboveground biomass, stem density and seed production) in response to seven cropping treatments: (1–4) tall and short spring wheat cultivars crossed with high and low seeding rates, (5–6) annual forage mixture terminated using sheep grazing and simulated haying and (7) tilled fallow. <i>Avena fatua</i>'s competitive intensity in wheat and the annual forage mixture was determined using a relative competition intensity index.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Results</h3>\u0000 \u0000 <p><i>Avena fatua</i> performance was lowest in tilled fallow, although stem density and seed production did not differ from the grazed annual forage treatment. Response variables were lower in the forage treatments compared with the wheat treatments, and there were no differences among the four fully crossed wheat treatments. Separate analysis of the wheat treatments indicated lower <i>A. fatua</i> biomass and stem density when wheat was sown at a higher rate with no impact of wheat height. <i>Avena fatua</i> competition impacted wheat and forage crops but was more intense for wheat.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Conclusion</h3>\u0000 \u0000 <p>Tillage was the most effective treatment at reducing <i>A. fatua</i> performance, but annual forage mixtures can be used to resist <i>A. fatua</i> invasion (reduced <i>A. fatua</i> competitive intensity) and limit its performance after invasion. We conclude that crop sequences that combine higher cash crop (wheat) seeding rates and competitive annual forage mixtures may be utilized to manage <i>A. fatua</i> invaded systems, thereby reducing heavy reliance on tillage in the US Northern Great Plains and similar semi-arid regions.</p>\u0000 </section>\u0000 </div>","PeriodicalId":100834,"journal":{"name":"Journal of Sustainable Agriculture and Environment","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-10-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/sae2.12078","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135617577","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Integrating grafting and companion planting to improve crop performance in intensive high-tunnel tomato production 整合嫁接和伴生种植,提高高垄番茄集约化生产中的作物产量
Pub Date : 2023-10-12 DOI: 10.1002/sae2.12074
Wadih Ghanem, Ian Kaplan

Introduction

Tomatoes are among the most popular horticultural crops cultivated in high tunnels. Due to space limitations in these enclosed environments, some tomatoes are produced in succession (i.e., without rotation) across years, which could lead to yield reductions over time. However, the impact of tomato monocultures on productivity in high tunnels and strategies to buffer against yield declines need further testing.

Materials and Methods

We used a 4-year field experiment whereby heirloom tomatoes (cv. Cherokee Purple and Black Krim) were grown in the same high tunnel soil over time. We tested the impact of both tomato grafting and companion planting on aboveground vegetative biomass and fruit yield. For the grafting treatment, we used the commercially available Maxifort and wild tomato, Solanum pimpinellifolium, as rootstocks. For companion planting, we seeded open alleys with clover and spatially shifted crop beds each year such that tomatoes were transplanted into the previous year's clover planting.

Results

Our data indicate that the companion (clover) treatment had little to no impact on tomato production, while grafting to Maxifort rootstock had a significant positive effect on biomass and yield. However, beneficial effects of grafting were only observed over time, in years three (+71% inc. in biomass) and four (+77% inc. in biomass, +38% inc. in yield) of the experiment; not during the initial 2 years. Leaf (SPAD) and fruit (Brix) metrics were unaffected by any of the treatments.

Conclusion

Overall, our results suggest that grafting tomatoes with commercially available rootstock is an effective tool for maintaining production in high tunnel monocultures over time.

引言 番茄是在高温室中栽培的最受欢迎的园艺作物之一。由于这些封闭环境的空间限制,有些番茄是连年生产的(即不轮作),这可能会导致长期减产。然而,番茄单株栽培对高棚生产率的影响以及防止产量下降的策略还需要进一步测试。 材料与方法 我们进行了一项为期 4 年的田间试验,将传家宝番茄(Cherokee Purple 和 Black Krim 两个品种)长期种植在相同的高隧道土壤中。我们测试了番茄嫁接和伴生种植对地上部植被生物量和果实产量的影响。在嫁接处理中,我们使用市售的 Maxifort 和野生番茄 Solanum pimpinellifolium 作为砧木。在伴生种植方面,我们在空旷的小巷里播种了三叶草,并每年对作物床进行空间移动,以便将番茄移植到前一年种植的三叶草上。 结果 我们的数据表明,伴种(三叶草)处理对番茄产量几乎没有影响,而嫁接到 Maxifort 砧木上对生物量和产量有显著的积极影响。然而,只有在试验的第三年(生物量增加了 71%)和第四年(生物量增加了 77%,产量增加了 38%),嫁接才会随着时间的推移产生有益的影响,而不是在最初的两年。叶片(SPAD)和果实(Brix)的指标不受任何处理的影响。 结论 总的来说,我们的研究结果表明,用市场上可买到的砧木嫁接西红柿是长期保持高隧道单一种植产量的有效工具。
{"title":"Integrating grafting and companion planting to improve crop performance in intensive high-tunnel tomato production","authors":"Wadih Ghanem,&nbsp;Ian Kaplan","doi":"10.1002/sae2.12074","DOIUrl":"10.1002/sae2.12074","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <h3> Introduction</h3>\u0000 \u0000 <p>Tomatoes are among the most popular horticultural crops cultivated in high tunnels. Due to space limitations in these enclosed environments, some tomatoes are produced in succession (i.e., without rotation) across years, which could lead to yield reductions over time. However, the impact of tomato monocultures on productivity in high tunnels and strategies to buffer against yield declines need further testing.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Materials and Methods</h3>\u0000 \u0000 <p>We used a 4-year field experiment whereby heirloom tomatoes (cv. Cherokee Purple and Black Krim) were grown in the same high tunnel soil over time. We tested the impact of both tomato grafting and companion planting on aboveground vegetative biomass and fruit yield. For the grafting treatment, we used the commercially available Maxifort and wild tomato, <i>Solanum pimpinellifolium</i>, as rootstocks. For companion planting, we seeded open alleys with clover and spatially shifted crop beds each year such that tomatoes were transplanted into the previous year's clover planting.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Results</h3>\u0000 \u0000 <p>Our data indicate that the companion (clover) treatment had little to no impact on tomato production, while grafting to Maxifort rootstock had a significant positive effect on biomass and yield. However, beneficial effects of grafting were only observed over time, in years three (+71% inc. in biomass) and four (+77% inc. in biomass, +38% inc. in yield) of the experiment; not during the initial 2 years. Leaf (SPAD) and fruit (Brix) metrics were unaffected by any of the treatments.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Conclusion</h3>\u0000 \u0000 <p>Overall, our results suggest that grafting tomatoes with commercially available rootstock is an effective tool for maintaining production in high tunnel monocultures over time.</p>\u0000 </section>\u0000 </div>","PeriodicalId":100834,"journal":{"name":"Journal of Sustainable Agriculture and Environment","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-10-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/sae2.12074","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"136014418","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
期刊
Journal of Sustainable Agriculture and Environment
全部 Acc. Chem. Res. ACS Applied Bio Materials ACS Appl. Electron. Mater. ACS Appl. Energy Mater. ACS Appl. Mater. Interfaces ACS Appl. Nano Mater. ACS Appl. Polym. Mater. ACS BIOMATER-SCI ENG ACS Catal. ACS Cent. Sci. ACS Chem. Biol. ACS Chemical Health & Safety ACS Chem. Neurosci. ACS Comb. Sci. ACS Earth Space Chem. ACS Energy Lett. ACS Infect. Dis. ACS Macro Lett. ACS Mater. Lett. ACS Med. Chem. Lett. ACS Nano ACS Omega ACS Photonics ACS Sens. ACS Sustainable Chem. Eng. ACS Synth. Biol. Anal. Chem. BIOCHEMISTRY-US Bioconjugate Chem. BIOMACROMOLECULES Chem. Res. Toxicol. Chem. Rev. Chem. Mater. CRYST GROWTH DES ENERG FUEL Environ. Sci. Technol. Environ. Sci. Technol. Lett. Eur. J. Inorg. Chem. IND ENG CHEM RES Inorg. Chem. J. Agric. Food. Chem. J. Chem. Eng. Data J. Chem. Educ. J. Chem. Inf. Model. J. Chem. Theory Comput. J. Med. Chem. J. Nat. Prod. J PROTEOME RES J. Am. Chem. Soc. LANGMUIR MACROMOLECULES Mol. Pharmaceutics Nano Lett. Org. Lett. ORG PROCESS RES DEV ORGANOMETALLICS J. Org. Chem. J. Phys. Chem. J. Phys. Chem. A J. Phys. Chem. B J. Phys. Chem. C J. Phys. Chem. Lett. Analyst Anal. Methods Biomater. Sci. Catal. Sci. Technol. Chem. Commun. Chem. Soc. Rev. CHEM EDUC RES PRACT CRYSTENGCOMM Dalton Trans. Energy Environ. Sci. ENVIRON SCI-NANO ENVIRON SCI-PROC IMP ENVIRON SCI-WAT RES Faraday Discuss. Food Funct. Green Chem. Inorg. Chem. Front. Integr. Biol. J. Anal. At. Spectrom. J. Mater. Chem. A J. Mater. Chem. B J. Mater. Chem. C Lab Chip Mater. Chem. Front. Mater. Horiz. MEDCHEMCOMM Metallomics Mol. Biosyst. Mol. Syst. Des. Eng. Nanoscale Nanoscale Horiz. Nat. Prod. Rep. New J. Chem. Org. Biomol. Chem. Org. Chem. Front. PHOTOCH PHOTOBIO SCI PCCP Polym. Chem.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
0
微信
客服QQ
Book学术公众号 扫码关注我们
反馈
×
意见反馈
请填写您的意见或建议
请填写您的手机或邮箱
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
现在去查看 取消
×
提示
确定
Book学术官方微信
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术
文献互助 智能选刊 最新文献 互助须知 联系我们:info@booksci.cn
Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。
Copyright © 2023 Book学术 All rights reserved.
ghs 京公网安备 11010802042870号 京ICP备2023020795号-1