Pub Date : 2025-12-10DOI: 10.1007/s00374-025-01965-7
Daria Frohloff, Andreas Rytz, Michael Clare, Claudio Cropano, Guillaume Lassalle, Marcus A. Horn, Elodie Soussan, Adrian Ho
{"title":"Design-based soil sampling strategy for unbiased and precise soil characteristics in arable fields","authors":"Daria Frohloff, Andreas Rytz, Michael Clare, Claudio Cropano, Guillaume Lassalle, Marcus A. Horn, Elodie Soussan, Adrian Ho","doi":"10.1007/s00374-025-01965-7","DOIUrl":"https://doi.org/10.1007/s00374-025-01965-7","url":null,"abstract":"","PeriodicalId":9210,"journal":{"name":"Biology and Fertility of Soils","volume":"28 1","pages":""},"PeriodicalIF":6.5,"publicationDate":"2025-12-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145711453","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-09DOI: 10.1007/s00374-025-01963-9
Maria Vega Cofre, Jiarui Sun, Wendy Williams, Rebecca Lyons, Peter O’Reagain, Susanne Schmidt, Paul G. Dennis
{"title":"Impacts of grazing management on biocrust microbiomes and their potential to input and cycle nutrients","authors":"Maria Vega Cofre, Jiarui Sun, Wendy Williams, Rebecca Lyons, Peter O’Reagain, Susanne Schmidt, Paul G. Dennis","doi":"10.1007/s00374-025-01963-9","DOIUrl":"https://doi.org/10.1007/s00374-025-01963-9","url":null,"abstract":"","PeriodicalId":9210,"journal":{"name":"Biology and Fertility of Soils","volume":"15 1","pages":""},"PeriodicalIF":6.5,"publicationDate":"2025-12-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145703986","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-06DOI: 10.1007/s00374-025-01966-6
Viola Kurm, Mirjam T. Schilder, Johnny H. M. Visser, Joeke Postma
{"title":"Integration of six field studies to assess soil suppressiveness against Globisporangium ultimum under different management practices","authors":"Viola Kurm, Mirjam T. Schilder, Johnny H. M. Visser, Joeke Postma","doi":"10.1007/s00374-025-01966-6","DOIUrl":"https://doi.org/10.1007/s00374-025-01966-6","url":null,"abstract":"","PeriodicalId":9210,"journal":{"name":"Biology and Fertility of Soils","volume":"25 1 1","pages":""},"PeriodicalIF":6.5,"publicationDate":"2025-12-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145680324","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-03DOI: 10.1007/s00374-025-01957-7
Obey Kudakwashe Zveushe, Faqin Dong, Ying Han, Hengxing Zhang, Wenfang Chen, Lucas Gutiérrez Rodríguez, Lei Zhou, Wei Zhang, Víctor Resco de Dios
{"title":"Dissecting the shift in dominant bacterial protein functions during primary succession in a retreating glacier from the eastern Tibetan plateau","authors":"Obey Kudakwashe Zveushe, Faqin Dong, Ying Han, Hengxing Zhang, Wenfang Chen, Lucas Gutiérrez Rodríguez, Lei Zhou, Wei Zhang, Víctor Resco de Dios","doi":"10.1007/s00374-025-01957-7","DOIUrl":"https://doi.org/10.1007/s00374-025-01957-7","url":null,"abstract":"","PeriodicalId":9210,"journal":{"name":"Biology and Fertility of Soils","volume":"117 1","pages":""},"PeriodicalIF":6.5,"publicationDate":"2025-12-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145657209","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-11-05DOI: 10.1007/s00374-025-01961-x
Jin-Cheng Ye, Wei-Liang Li, You-Qun Xie, Huan Du, Lei Xiang, Bai-Lin Liu, Nai-Xian Feng, Yan-Wen Li, Quan-Ying Cai, Miaoyue Zhang, Ce-Hui Mo, Hai-Ming Zhao
{"title":"Enhanced bioremediation of α-terpineol-contaminated mining soil through immobilization of Indigenous biosurfactant-producing bacteria on biochar","authors":"Jin-Cheng Ye, Wei-Liang Li, You-Qun Xie, Huan Du, Lei Xiang, Bai-Lin Liu, Nai-Xian Feng, Yan-Wen Li, Quan-Ying Cai, Miaoyue Zhang, Ce-Hui Mo, Hai-Ming Zhao","doi":"10.1007/s00374-025-01961-x","DOIUrl":"https://doi.org/10.1007/s00374-025-01961-x","url":null,"abstract":"","PeriodicalId":9210,"journal":{"name":"Biology and Fertility of Soils","volume":"91 1","pages":""},"PeriodicalIF":6.5,"publicationDate":"2025-11-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145441310","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-10-31DOI: 10.1007/s00374-025-01959-5
Zhiyang Zhang, Xin Jing, Steffen Kolb, Yi Jiao
Herbivore dung deposition represents a fundamental ecological disturbance in grassland ecosystems, profoundly modulating biogeochemical processes such as nutrient pool dynamics. While short-term effects on specific nutrient processes is generally established, the long-term consequences of herbivore dung deposition on soil nutrient pool turnover in alpine grassland, particularly the interacting biotic and abiotic regulatory mechanisms, remains incomplete. To bridge this knowledge gap, we established a three-year yak dung decomposition experiment in a permanently grazed alpine pasture on the Qinghai-Tibet Plateau, investigating how dung-induced alterations in bacterial communities and some critical soil parameters (including pH, moisture content, and enzymatic activities) collectively regulate nutrient pool turnover in alpine grassland soils. Results showed that dung deposition substantially accelerates soil nutrient cycling, with peak turnover occurring during the early and middle decomposition phases. Concurrently, dung deposition elevated the soil pH and moisture content and enhanced the enzymatic activities integral to the nutrient turnovers, including β-1,4-glucosidase, β-1,4-xylosidase, L-leucine aminopeptidase, acid phosphatase, and oxidase activities, as well as increased the diversity (Shannon index) and altered the composition of bacterial communities. Bacterial communities, moisture content, enzymatic activities, and pH collectively regulate nutrient pool turnover, with bacterial communities exerting the strongest influence among these factors. Notably, dung deposition significantly enriched bacterial lineages, particularly Pseudomonadota , Bacteroidota , and Bacillota , along with their dominant subgroups (e.g., Alphaproteobacteria , Gammaproteobacteria , Bacteroidia , and Bacilli ), which emerged as the primary copiotrophic microbial drivers of nutrient pool turnover in response to dung inputs. Together, these findings from our full-lifecycle in situ experiment demonstrate that herbivore dung deposition accelerates alpine grassland soil nutrient cycling predominantly by stimulating copiotrophic bacterial activity. This integrated perspective advances our understanding of how escalating herbivore activity may reshape biogeochemical cycling in grazed alpine ecosystems, with implications for sustainable grassland management and carbon sequestration strategies.
{"title":"Herbivore Dung inputs mainly drive copiotrophic bacterial contributions to soil nutrient pool turnover in alpine grasslands","authors":"Zhiyang Zhang, Xin Jing, Steffen Kolb, Yi Jiao","doi":"10.1007/s00374-025-01959-5","DOIUrl":"https://doi.org/10.1007/s00374-025-01959-5","url":null,"abstract":"Herbivore dung deposition represents a fundamental ecological disturbance in grassland ecosystems, profoundly modulating biogeochemical processes such as nutrient pool dynamics. While short-term effects on specific nutrient processes is generally established, the long-term consequences of herbivore dung deposition on soil nutrient pool turnover in alpine grassland, particularly the interacting biotic and abiotic regulatory mechanisms, remains incomplete. To bridge this knowledge gap, we established a three-year yak dung decomposition experiment in a permanently grazed alpine pasture on the Qinghai-Tibet Plateau, investigating how dung-induced alterations in bacterial communities and some critical soil parameters (including pH, moisture content, and enzymatic activities) collectively regulate nutrient pool turnover in alpine grassland soils. Results showed that dung deposition substantially accelerates soil nutrient cycling, with peak turnover occurring during the early and middle decomposition phases. Concurrently, dung deposition elevated the soil pH and moisture content and enhanced the enzymatic activities integral to the nutrient turnovers, including β-1,4-glucosidase, β-1,4-xylosidase, L-leucine aminopeptidase, acid phosphatase, and oxidase activities, as well as increased the diversity (Shannon index) and altered the composition of bacterial communities. Bacterial communities, moisture content, enzymatic activities, and pH collectively regulate nutrient pool turnover, with bacterial communities exerting the strongest influence among these factors. Notably, dung deposition significantly enriched bacterial lineages, particularly <jats:italic>Pseudomonadota</jats:italic> , <jats:italic>Bacteroidota</jats:italic> , and <jats:italic>Bacillota</jats:italic> , along with their dominant subgroups (e.g., <jats:italic>Alphaproteobacteria</jats:italic> , <jats:italic>Gammaproteobacteria</jats:italic> , <jats:italic>Bacteroidia</jats:italic> , and <jats:italic>Bacilli</jats:italic> ), which emerged as the primary copiotrophic microbial drivers of nutrient pool turnover in response to dung inputs. Together, these findings from our full-lifecycle in situ experiment demonstrate that herbivore dung deposition accelerates alpine grassland soil nutrient cycling predominantly by stimulating copiotrophic bacterial activity. This integrated perspective advances our understanding of how escalating herbivore activity may reshape biogeochemical cycling in grazed alpine ecosystems, with implications for sustainable grassland management and carbon sequestration strategies.","PeriodicalId":9210,"journal":{"name":"Biology and Fertility of Soils","volume":"150 1","pages":""},"PeriodicalIF":6.5,"publicationDate":"2025-10-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145403941","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-10-27DOI: 10.1007/s00374-025-01958-6
Dechang Ji, Bin Zhou, Haoran Yu, Kyle Mason-Jones, Jingkuan Wang, Fan Ding
{"title":"Grassland above- and below-ground inputs have similar effects on soil organic matter: A five-year field trial","authors":"Dechang Ji, Bin Zhou, Haoran Yu, Kyle Mason-Jones, Jingkuan Wang, Fan Ding","doi":"10.1007/s00374-025-01958-6","DOIUrl":"https://doi.org/10.1007/s00374-025-01958-6","url":null,"abstract":"","PeriodicalId":9210,"journal":{"name":"Biology and Fertility of Soils","volume":"17 1","pages":""},"PeriodicalIF":6.5,"publicationDate":"2025-10-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145382215","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-10-25DOI: 10.1007/s00374-025-01949-7
María Martín Roldán, Christina Fasching, E. Marie Muehe, Doris Vetterlein, Mika T. Tarkka, Evgenia Blagodatskaya
Soil fertility is strongly determined by soil organic matter content, which is modulated by the interplay between soil properties, roots, and microbial activity. However, it is unclear how root morphology in interaction with soil texture affects microbial traits and the storage of organic matter in soil. To address this gap, two maize genotypes differing in the presence of root hairs (the root hair deficient mutant rth3 and its corresponding wild type) were grown in monoculture for five consecutive years in excavated plots filled with two homogenised substrates (loam and sand). In the fifth year of maize monoculture, soil was sampled during plant growth in summer and after six months of winter fallow after harvest. We found slower microbial growth and lower microbial C accumulation in summer with rth3 grown in loam compared to wild-type plants. We also observed increased soil organic C and total N contents in loam after winter fallow of rth3 compared to the wild type. This was accompanied by a higher relative abundance of carboxylic acids, lignin, primary amides and ester groups in the former. In sand, retarded microbial growth and lower microbial C content were observed compared to the loam. In conclusion, heterotrophic microorganisms appear to play a crucial role in the accumulation of soil organic matter during winter, when there is no input of fresh labile molecules from active roots. It is therefore essential to implement agricultural practices that facilitate these processes.
{"title":"Root hair-deficient mutant of maize promoted an increase in C and N in loamy soil after 5 years of monoculture","authors":"María Martín Roldán, Christina Fasching, E. Marie Muehe, Doris Vetterlein, Mika T. Tarkka, Evgenia Blagodatskaya","doi":"10.1007/s00374-025-01949-7","DOIUrl":"https://doi.org/10.1007/s00374-025-01949-7","url":null,"abstract":"Soil fertility is strongly determined by soil organic matter content, which is modulated by the interplay between soil properties, roots, and microbial activity. However, it is unclear how root morphology in interaction with soil texture affects microbial traits and the storage of organic matter in soil. To address this gap, two maize genotypes differing in the presence of root hairs (the root hair deficient mutant <jats:italic>rth3</jats:italic> and its corresponding wild type) were grown in monoculture for five consecutive years in excavated plots filled with two homogenised substrates (loam and sand). In the fifth year of maize monoculture, soil was sampled during plant growth in summer and after six months of winter fallow after harvest. We found slower microbial growth and lower microbial C accumulation in summer with <jats:italic>rth3</jats:italic> grown in loam compared to wild-type plants. We also observed increased soil organic C and total N contents in loam after winter fallow of <jats:italic>rth3</jats:italic> compared to the wild type. This was accompanied by a higher relative abundance of carboxylic acids, lignin, primary amides and ester groups in the former. In sand, retarded microbial growth and lower microbial C content were observed compared to the loam. In conclusion, heterotrophic microorganisms appear to play a crucial role in the accumulation of soil organic matter during winter, when there is no input of fresh labile molecules from active roots. It is therefore essential to implement agricultural practices that facilitate these processes.","PeriodicalId":9210,"journal":{"name":"Biology and Fertility of Soils","volume":"110 1","pages":""},"PeriodicalIF":6.5,"publicationDate":"2025-10-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145382219","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-08-29DOI: 10.1007/s00374-025-01935-z
Jiao Yang, Zhifeng Zhou, Yu Zhang, Chaolei Yuan
Plant residue added into soils may release substances interfering DNA extraction and PCR, influencing the subsequent profiling of soil microbial community. Many field and laboratory studies investigate the effect of plant residue (e.g., straw) on soil bacterial communities after a period of time. However, whether aged plant residue will exert an interfering impact remains unanswered. Here, five air-dried soils were mixed with 5 g kg−1 rice straw and then stored at room temperature (~ 25 ℃), -20 ℃, or -80 ℃. At all three temperatures, we found that compared to the unamended control soils, plant residue had a minor effect (< 10%) on bacterial abundance and no significant effect on bacterial community composition after 4 and 10 weeks. However, for two air-dried soils (soils 4 and 5), we observed a significant increase in bacterial abundance and a shift in bacterial community composition after storage for 4 and 10 weeks, compared to week 0, at all three temperatures. These findings stood when we repeated the experiment with a rice straw addition rate at 20 g kg−1. Many of the phylotypes that increased after storage in soils 4 and 5, which had the highest pH and lowest nutrient contents in all soils, are reportedly tolerant to dry, alkaline, or oligotrophic conditions. Metagenomic analysis further showed that genes related to bacterial drought, cold, and alkali resistance increased in soils 4 and 5 after storage. These results suggest that aged plant residue does not affect bacterial communities in air-dried soils but for alkaline and oligotrophic air-dried soils, storage may do even at -80 ℃. This work can help us optimize the storage of soils for microbial analysis and understand microorganism survival in dry soils.
植物残体添加到土壤中会释放出干扰DNA提取和PCR的物质，影响土壤微生物群落的后续分析。许多实地和实验室研究调查了植物残留物（如秸秆）在一段时间后对土壤细菌群落的影响。然而，陈年植物残留物是否会产生干扰影响仍未得到解答。在这里，5个风干土壤与5 g kg - 1稻草混合，然后在室温（~ 25℃），-20℃和-80℃下保存。在3种温度下，与未处理的对照土壤相比，4周和10周后，植物残渣对细菌丰度的影响较小（10%），对细菌群落组成的影响不显著。然而，对于两种风干土壤（土壤4和土壤5），我们观察到，在所有三种温度下，与第0周相比，在储存4周和10周后，细菌丰度显著增加，细菌群落组成发生了变化。当稻草添加量为20 g kg−1时，上述结果仍然成立。在所有土壤中pH值最高、养分含量最低的土壤4和土壤5中，许多种型在储存后增加，据报道，它们对干燥、碱性或少营养条件具有耐受性。宏基因组分析进一步表明，土壤4和土壤5在贮藏后细菌抗旱、抗寒和抗碱相关基因增加。这些结果表明，植物残渣在风干土壤中不影响细菌群落，但对于碱性和少营养的风干土壤，即使在-80℃的温度下，也可能影响细菌群落。这项工作可以帮助我们优化土壤的储存进行微生物分析，并了解微生物在干燥土壤中的生存。
{"title":"Storage, not plant residues, may influence bacterial communities in air-dried soils even at -80 ℃","authors":"Jiao Yang, Zhifeng Zhou, Yu Zhang, Chaolei Yuan","doi":"10.1007/s00374-025-01935-z","DOIUrl":"https://doi.org/10.1007/s00374-025-01935-z","url":null,"abstract":"<p>Plant residue added into soils may release substances interfering DNA extraction and PCR, influencing the subsequent profiling of soil microbial community. Many field and laboratory studies investigate the effect of plant residue (e.g., straw) on soil bacterial communities after a period of time. However, whether aged plant residue will exert an interfering impact remains unanswered. Here, five air-dried soils were mixed with 5 g kg<sup>−1</sup> rice straw and then stored at room temperature (~ 25 ℃), -20 ℃, or -80 ℃. At all three temperatures, we found that compared to the unamended control soils, plant residue had a minor effect (< 10%) on bacterial abundance and no significant effect on bacterial community composition after 4 and 10 weeks. However, for two air-dried soils (soils 4 and 5), we observed a significant increase in bacterial abundance and a shift in bacterial community composition after storage for 4 and 10 weeks, compared to week 0, at all three temperatures. These findings stood when we repeated the experiment with a rice straw addition rate at 20 g kg<sup>−1</sup>. Many of the phylotypes that increased after storage in soils 4 and 5, which had the highest pH and lowest nutrient contents in all soils, are reportedly tolerant to dry, alkaline, or oligotrophic conditions. Metagenomic analysis further showed that genes related to bacterial drought, cold, and alkali resistance increased in soils 4 and 5 after storage. These results suggest that aged plant residue does not affect bacterial communities in air-dried soils but for alkaline and oligotrophic air-dried soils, storage may do even at -80 ℃. This work can help us optimize the storage of soils for microbial analysis and understand microorganism survival in dry soils.</p>","PeriodicalId":9210,"journal":{"name":"Biology and Fertility of Soils","volume":"19 1","pages":""},"PeriodicalIF":6.5,"publicationDate":"2025-08-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144930648","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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