Pub Date : 2026-01-15DOI: 10.1186/s12870-026-08102-y
Maria Wali, Muhammad Sufyan Durrani, Muhammad Amjid, Asif Jan, Muhammad Maroof Khan, Mequanente Dagnaw
{"title":"In silico characterization, evolutionary analysis, and structural modeling of HSP70 gene family in carrot (Daucus Carota L.).","authors":"Maria Wali, Muhammad Sufyan Durrani, Muhammad Amjid, Asif Jan, Muhammad Maroof Khan, Mequanente Dagnaw","doi":"10.1186/s12870-026-08102-y","DOIUrl":"https://doi.org/10.1186/s12870-026-08102-y","url":null,"abstract":"","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":" ","pages":""},"PeriodicalIF":4.8,"publicationDate":"2026-01-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145988415","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2026-01-14DOI: 10.1186/s12870-026-08128-2
Nikolaos Kaloterakis, Andrea Braun-Kiewnick, Mehdi Rashtbari, Adriana Giongo, Doreen Babin, Priscilla M Zamberlan, Bahar S Razavi, Kornelia Smalla, Rüdiger Reichel, Nicolas Brüggemann
The soil legacy of successively grown winter wheat (WW) often leads to lower plant growth and yield. In this study, we assessed the effect of Bacillus pumilus seed inoculation on the early growth of successively grown WW. We conducted an outdoor experiment using newly designed temperature-regulated rhizotrons. WW was grown in soil from two rotational positions, i.e., first WW after oilseed rape (W1) and second WW after oilseed rape (W2), until the end of tillering. We measured several plant and soil biochemical parameters. In addition, amplicons of the 16S rRNA gene were sequenced to account for bacterial and archaeal community shifts in the rhizosphere, and functional genes involved in the nitrogen cycle were quantified to estimate possible changes in N cycling due to B. pumilus inoculation. B. pumilus seed coating significantly compensated for the early growth reduction of W2, and this effect was primarily linked to changes in root plasticity with a higher root length density and a smaller specific root length in inoculated W2 compared with non-inoculated W2. There was a higher LAP activity in the rhizosphere of inoculated W2 plants than in the rhizosphere of non-inoculated W2 plants and this was followed by a reduction in soil NO3-, most probably due to an enhanced plant N uptake capacity. This was also shown in the increased potassium content of the inoculated W2 plants compared with their non-inoculated counterparts. B. pumilus seed coating did not influence the bacterial and archaeal alpha and beta diversity, but differential abundance analysis identified differences in the relative abundance of certain taxa between non-inoculated and inoculated W2. While B. pumilus seed coating significantly improved root growth and nutrient uptake in W2, this was not accompanied by a higher absolute abundance of bacterial or archaeal genes involved in N-cycling. Our study suggests that certain plant-beneficial microbes can reverse the negative plant-soil feedback in successive WW rotations and provides strong evidence of B. pumilus seed coating to promote WW productivity under such rotations.
{"title":"Bacillus seed coating mitigates early growth reduction in successive winter wheat without altering rhizosphere bacterial and archaeal communities.","authors":"Nikolaos Kaloterakis, Andrea Braun-Kiewnick, Mehdi Rashtbari, Adriana Giongo, Doreen Babin, Priscilla M Zamberlan, Bahar S Razavi, Kornelia Smalla, Rüdiger Reichel, Nicolas Brüggemann","doi":"10.1186/s12870-026-08128-2","DOIUrl":"https://doi.org/10.1186/s12870-026-08128-2","url":null,"abstract":"<p><p>The soil legacy of successively grown winter wheat (WW) often leads to lower plant growth and yield. In this study, we assessed the effect of Bacillus pumilus seed inoculation on the early growth of successively grown WW. We conducted an outdoor experiment using newly designed temperature-regulated rhizotrons. WW was grown in soil from two rotational positions, i.e., first WW after oilseed rape (W1) and second WW after oilseed rape (W2), until the end of tillering. We measured several plant and soil biochemical parameters. In addition, amplicons of the 16S rRNA gene were sequenced to account for bacterial and archaeal community shifts in the rhizosphere, and functional genes involved in the nitrogen cycle were quantified to estimate possible changes in N cycling due to B. pumilus inoculation. B. pumilus seed coating significantly compensated for the early growth reduction of W2, and this effect was primarily linked to changes in root plasticity with a higher root length density and a smaller specific root length in inoculated W2 compared with non-inoculated W2. There was a higher LAP activity in the rhizosphere of inoculated W2 plants than in the rhizosphere of non-inoculated W2 plants and this was followed by a reduction in soil NO<sub>3</sub><sup>-</sup>, most probably due to an enhanced plant N uptake capacity. This was also shown in the increased potassium content of the inoculated W2 plants compared with their non-inoculated counterparts. B. pumilus seed coating did not influence the bacterial and archaeal alpha and beta diversity, but differential abundance analysis identified differences in the relative abundance of certain taxa between non-inoculated and inoculated W2. While B. pumilus seed coating significantly improved root growth and nutrient uptake in W2, this was not accompanied by a higher absolute abundance of bacterial or archaeal genes involved in N-cycling. Our study suggests that certain plant-beneficial microbes can reverse the negative plant-soil feedback in successive WW rotations and provides strong evidence of B. pumilus seed coating to promote WW productivity under such rotations.</p>","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":" ","pages":""},"PeriodicalIF":4.8,"publicationDate":"2026-01-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145965405","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2026-01-14DOI: 10.1186/s12870-026-08130-8
Hye Rang Park, Sewon Park, Joo-Mi Jun, Yoon Ji Shin, Yeojin Hwang, Kyoung Yong Jeong, Min Young Kim, Sun Tae Kim, Sangjun Park, Yo-Han H Yoo, Eunsoo Lee, Girim Park, Sang-Gyu Kim, Soo-Kwon Park
{"title":"CRISPR/Cas9 editing of β-Conglycinin subunits reduces IgE binding in soybean [Glycine max (L.) Merr.].","authors":"Hye Rang Park, Sewon Park, Joo-Mi Jun, Yoon Ji Shin, Yeojin Hwang, Kyoung Yong Jeong, Min Young Kim, Sun Tae Kim, Sangjun Park, Yo-Han H Yoo, Eunsoo Lee, Girim Park, Sang-Gyu Kim, Soo-Kwon Park","doi":"10.1186/s12870-026-08130-8","DOIUrl":"https://doi.org/10.1186/s12870-026-08130-8","url":null,"abstract":"","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":" ","pages":""},"PeriodicalIF":4.8,"publicationDate":"2026-01-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145970575","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2026-01-14DOI: 10.1186/s12870-025-08048-7
Shijie Lv, Zihan Wang, Hui Zhang, Fan Zhang, Hongmei Liu, Ruiting Jia, Xing Li, Liying Liu, Yiwen Yang, Hui Yan
Background: To investigate the state transition processes of plant community in desert steppe under different stocking rates, this study aims to systematically uncover the intrinsic characteristics of such transition processes and their underlying network-driven mechanisms across three hierarchical levels (i.e., species, functional group, and plant family). The findings are expected to provide a robust scientific basis for optimizing adaptive grassland management strategies and facilitating the restoration of degraded desert steppe ecosystems.
Methods: The study was conducted in Stipa breviflora desert steppe. Four grazing treatments were established: control (CK, no grazing), light grazing (LG), moderate grazing (MG), and heavy grazing (HG), with stocking rates of 0, 0.91, 1.82, and 2.71 sheep units·hm⁻²·half year⁻¹, respectively. Plant population height, coverage, and density were surveyed, and importance values were calculated. Based on species composition proportion and resource allocation proportion matrices, a Bray-Curtis state transition model was constructed.
Results: The CK treatment exhibited the highest community self-stability. Species composition stability increased with increasing stocking rates (across the LG-HG gradient), while resource allocation stability decreased with increasing stocking rates below MG (CK > LG > MG). Grazing disturbance made grassland degradation easier than recovery. Restoring degraded grasslands requires a stepwise reduction grazing strategy: "from HG to MG to LG". State transitions across stocking rates occurred at multiple levels. Population proportion similarity showed bipolar differentiation, while resource dependence on grazing conditions exhibited a three-dimensional response. Perennial grasses (PG) showed significant resource output tendencies, perennial forbs (PF) acted as the core receiving center, and shrubs/semi-shrubs (SS) and annual/biennial plants (AB) served as intermediaries. Poaceae (POA) dominated resource output, while Asteraceae (AST) and Chenopodiaceae (CHE) functioned as key transfer hubs.
Conclusion: In summary, multiple stable states formed by grazing in desert steppe. The differentiation in species response strategies and reallocation among functional groups/families are the core mechanisms driving state transitions. For degraded grasslands, promoting recovery through stepwise reduce stocking rate is superior to fencing exclusion.
背景:研究不同载畜率下荒漠草原植物群落的状态转换过程,系统揭示荒漠草原植物群落状态转换过程的内在特征及其网络驱动机制,包括物种、功能群和植物科三个层次。研究结果将为优化适应性草原管理策略和促进退化荒漠草原生态系统的恢复提供有力的科学依据。方法:以短花针茅荒漠草原为研究对象。建立了对照(CK,不放牧)、轻度放牧(LG)、中度放牧(MG)和重度放牧(HG) 4种放牧处理,放养率分别为0、0.91、1.82和2.71羊单位·hm⁻²·半年⁻¹。调查植物种群高度、盖度和密度,计算重要值。基于物种组成比例和资源分配比例矩阵,构建了Bray-Curtis状态转移模型。结果:CK处理表现出最高的群落自稳定性。在MG (CK > LG > MG)以下,物种组成稳定性随载畜率的增加而增加,资源分配稳定性随载畜率的增加而降低。放牧干扰使草地退化比恢复更容易。恢复退化草原需要逐步减少放牧策略:“从HG到MG再到LG”。载畜率的状态转变发生在多个水平上。种群比例相似度表现为两极分化,资源依赖度对放牧条件表现为三维响应。多年生草本植物(PG)具有显著的资源输出趋势,多年生草本植物(PF)是核心接收中心,灌木/半灌木(SS)和一年生/二年生植物(AB)是中介。禾科植物(POA)在资源输出中占主导地位,而Asteraceae (AST)和Chenopodiaceae (CHE)则是资源输出的重要枢纽。结论:综上所述,荒漠草原放牧形成了多种稳定状态。物种响应策略的差异和功能群/科之间的再分配是驱动状态转变的核心机制。对于退化草地,通过逐步降低载畜率来促进恢复优于围栏隔离。
{"title":"Effects of stocking rate on the state transition processes of plant community in desert steppe.","authors":"Shijie Lv, Zihan Wang, Hui Zhang, Fan Zhang, Hongmei Liu, Ruiting Jia, Xing Li, Liying Liu, Yiwen Yang, Hui Yan","doi":"10.1186/s12870-025-08048-7","DOIUrl":"https://doi.org/10.1186/s12870-025-08048-7","url":null,"abstract":"<p><strong>Background: </strong>To investigate the state transition processes of plant community in desert steppe under different stocking rates, this study aims to systematically uncover the intrinsic characteristics of such transition processes and their underlying network-driven mechanisms across three hierarchical levels (i.e., species, functional group, and plant family). The findings are expected to provide a robust scientific basis for optimizing adaptive grassland management strategies and facilitating the restoration of degraded desert steppe ecosystems.</p><p><strong>Methods: </strong>The study was conducted in Stipa breviflora desert steppe. Four grazing treatments were established: control (CK, no grazing), light grazing (LG), moderate grazing (MG), and heavy grazing (HG), with stocking rates of 0, 0.91, 1.82, and 2.71 sheep units·hm⁻²·half year⁻¹, respectively. Plant population height, coverage, and density were surveyed, and importance values were calculated. Based on species composition proportion and resource allocation proportion matrices, a Bray-Curtis state transition model was constructed.</p><p><strong>Results: </strong>The CK treatment exhibited the highest community self-stability. Species composition stability increased with increasing stocking rates (across the LG-HG gradient), while resource allocation stability decreased with increasing stocking rates below MG (CK > LG > MG). Grazing disturbance made grassland degradation easier than recovery. Restoring degraded grasslands requires a stepwise reduction grazing strategy: \"from HG to MG to LG\". State transitions across stocking rates occurred at multiple levels. Population proportion similarity showed bipolar differentiation, while resource dependence on grazing conditions exhibited a three-dimensional response. Perennial grasses (PG) showed significant resource output tendencies, perennial forbs (PF) acted as the core receiving center, and shrubs/semi-shrubs (SS) and annual/biennial plants (AB) served as intermediaries. Poaceae (POA) dominated resource output, while Asteraceae (AST) and Chenopodiaceae (CHE) functioned as key transfer hubs.</p><p><strong>Conclusion: </strong>In summary, multiple stable states formed by grazing in desert steppe. The differentiation in species response strategies and reallocation among functional groups/families are the core mechanisms driving state transitions. For degraded grasslands, promoting recovery through stepwise reduce stocking rate is superior to fencing exclusion.</p>","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":" ","pages":""},"PeriodicalIF":4.8,"publicationDate":"2026-01-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145970668","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Assessment of suitable cultivation area for Paris polyphylla var. chinensis and var. yunnanensis under anthropogenic disturbance based on ensemble modeling and germplasm identification.","authors":"Yiheng Wang, Hangxiu Liu, Dan Zhao, Sheng Wang, Jingyi Wang, Xiulian Chi, Chengcai Zhang, Tielin Wang, Chaogeng Lyu, Chuanzhi Kang, Jiahui Sun, Lanping Guo, Luqi Huang","doi":"10.1186/s12870-025-08010-7","DOIUrl":"https://doi.org/10.1186/s12870-025-08010-7","url":null,"abstract":"","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":" ","pages":""},"PeriodicalIF":4.8,"publicationDate":"2026-01-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145970626","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2026-01-14DOI: 10.1186/s12870-025-08019-y
Kristýna Štěpánová, Zuzana Lhotáková, Eva Neuwirthová, Lucie Kupková, Lucie Červená, Filip Raasch, Markéta Potůčková, Jan Stejskal, Jaroslav Čepl, Petya Campbell, Milan Lstibůrek, Jana Albrechtová
Scots pine (Pinus sylvestris L.) is widely distributed, phenotypically plastic forest tree species with modest ecological demands, therefore it is a very suitable, drought tolerant species for afforestation at present. This is especially important given Europe's changing climate, with rising extremes and unpredictable rainfall challenging forest regeneration. Drought resistance of seedlings is essential for their survival during current reforestation efforts, however, its relation to ecotypic variation is yet not well understood. The objective of this study was to investigate the response of seedlings from two Czech Scots pine ecotypes (upland and lowland), exposed to water deficit at the beginning of the vegetative season - a critical period for successful afforestation from the perspective of precipitation availability. During a greenhouse experiment with nursery pre-grown seedlings, terminal shoot length and selected leaf functional traits (leaf mass per area; water and pigment contents; needle anatomy), chlorophyll fluorescence kinetics and seedling reflectance were monitored during ten-week irrigation reduction and after rewatering. The photochemical reflectance index (PRI) and the red edge position (REP) were calculated from spectral reflectance to distinguish differently treated seedlings. The lowland ecotype grew faster under control but suffered stronger growth reduction and higher mortality under drought. In contrast, across all recorded responses, the upland ecotype responds more consistently to changes in water availability, does not reduce terminal growth, accumulates less biomass and exhibits lower mortality. In general, for terminal growth, there was a significant effect of treatment and also an interaction of treatment and ecotype during the recovery period, unlike the drought period. REP was responsive in recovery period for upland ecotype while PRI showed no consistent drought-related pattern. Our results, in agreement with the fluorescence-based indicators, suggest that current-year needles are more suitable for drought stress detection using spectral indices. The upland ecotype showed several functional traits corresponding to better resilience to drought stress compared to the lowland ecotype. Understanding drought stress and recovery responses via effective leaf functional traits will help forest management to select suitable ecotypes for reforestation, ensuring a higher survival under changing climatic conditions.
{"title":"Scots pine seedlings of lowland and upland ecotypes respond differently to drought detected by needle functional traits and spectral reflectance.","authors":"Kristýna Štěpánová, Zuzana Lhotáková, Eva Neuwirthová, Lucie Kupková, Lucie Červená, Filip Raasch, Markéta Potůčková, Jan Stejskal, Jaroslav Čepl, Petya Campbell, Milan Lstibůrek, Jana Albrechtová","doi":"10.1186/s12870-025-08019-y","DOIUrl":"https://doi.org/10.1186/s12870-025-08019-y","url":null,"abstract":"<p><p>Scots pine (Pinus sylvestris L.) is widely distributed, phenotypically plastic forest tree species with modest ecological demands, therefore it is a very suitable, drought tolerant species for afforestation at present. This is especially important given Europe's changing climate, with rising extremes and unpredictable rainfall challenging forest regeneration. Drought resistance of seedlings is essential for their survival during current reforestation efforts, however, its relation to ecotypic variation is yet not well understood. The objective of this study was to investigate the response of seedlings from two Czech Scots pine ecotypes (upland and lowland), exposed to water deficit at the beginning of the vegetative season - a critical period for successful afforestation from the perspective of precipitation availability. During a greenhouse experiment with nursery pre-grown seedlings, terminal shoot length and selected leaf functional traits (leaf mass per area; water and pigment contents; needle anatomy), chlorophyll fluorescence kinetics and seedling reflectance were monitored during ten-week irrigation reduction and after rewatering. The photochemical reflectance index (PRI) and the red edge position (REP) were calculated from spectral reflectance to distinguish differently treated seedlings. The lowland ecotype grew faster under control but suffered stronger growth reduction and higher mortality under drought. In contrast, across all recorded responses, the upland ecotype responds more consistently to changes in water availability, does not reduce terminal growth, accumulates less biomass and exhibits lower mortality. In general, for terminal growth, there was a significant effect of treatment and also an interaction of treatment and ecotype during the recovery period, unlike the drought period. REP was responsive in recovery period for upland ecotype while PRI showed no consistent drought-related pattern. Our results, in agreement with the fluorescence-based indicators, suggest that current-year needles are more suitable for drought stress detection using spectral indices. The upland ecotype showed several functional traits corresponding to better resilience to drought stress compared to the lowland ecotype. Understanding drought stress and recovery responses via effective leaf functional traits will help forest management to select suitable ecotypes for reforestation, ensuring a higher survival under changing climatic conditions.</p>","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":" ","pages":""},"PeriodicalIF":4.8,"publicationDate":"2026-01-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145970657","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2026-01-14DOI: 10.1186/s12870-025-07967-9
Danfeng Tang, Jingchun Li, Changqian Quan, Meihua Xu, Fan Wei
Platostoma palustre (Blume) A. J. Paton (or Mesona chinensis Benth.), a traditional medicinal and edible plant in China, possesses significant economic and market potential. To investigate the underlying mechanism of seed aging in P. palustre, we utilized artificial aging technology to induce seed aging and assessed seed viability. Furthermore, we employed transcriptome and metabolome sequencing technologies to analyze gene expression and metabolic alterations in artificially aged seeds. The results showed that the germination rate, germination potential, and germination index of the P. palustre seeds decreased significantly after the aging treatment. Transcriptome analysis identified 2,127 differentially expressed genes (DEGs), consisting of 1,623 up-regulated and 504 down-regulated genes. Metabolomic analyses uncovered that a total of 1,919 metabolites were identified under positive ion mode (957) and negative ion mode (962). In total, 747 differentially expressed metabolites (DEMs) were identified, including 362 up-regulated and 385 down-regulated metabolites. An integrative analysis of transcriptome and metabolome indicated that only one pathway (ABC transporters) was significantly enriched in both DEMs and DEGs, and this pathway included 9 DEMs (Deoxyuridine, L-Glutamine, Sparfloxacin, L-Threonine, L-Histidine, Uridine, Guanosine, Ciprofloxacin, and D-Sorbitol) and 6 DEGs (Mesona_chinensis0082240.1, Mesona_chinensis0452530.1, Mesona_chinensis0457550.1, Mesona_chinensis0440370.1, Mesona_chinensis0324680.1, and Mesona_chinensis0233350.1). Further network analyses showed correlations between the 5 DEGs (except for Mesona_chinensis0324680.1) and 9 DEMs. It was inferred that the ABC transporters pathway and its related genes and metabolites might play an important role in seed aging in P. palustre. The current study laid the foundation for an in-depth investigation of the aging mechanism and safe storage of P. palustre seeds.
Platostoma palustre (Blume) a . J. Paton(或Mesona chinensis Benth.)是中国传统的药用和食用植物,具有重要的经济和市场潜力。为探讨黄颡鱼种子老化机理,采用人工老化技术诱导黄颡鱼种子老化,并对黄颡鱼种子活力进行评价。此外,我们利用转录组和代谢组测序技术分析了人工老化种子的基因表达和代谢变化。结果表明,陈化处理后,黄杨种子的发芽率、萌发势和萌发指数均显著降低。转录组分析鉴定出2127个差异表达基因(DEGs),其中上调1623个,下调504个。代谢组学分析发现,在正离子模式(957)和负离子模式(962)下,共鉴定出1,919种代谢物。共鉴定出747种差异表达代谢物(dem),其中上调代谢物362种,下调代谢物385种。转录组学和代谢组学综合分析表明,只有一条通路(ABC转运蛋白)在dem和deg中均显著富集,该通路包括9条dem(脱氧尿苷、l -谷氨酰胺、斯帕沙星、l -苏氨酸、l -组氨酸、尿苷、鸟苷、环丙沙星和d -山梨醇)和6条deg (Mesona_chinensis0082240.1、Mesona_chinensis0452530.1、Mesona_chinensis0457550.1、Mesona_chinensis0440370.1、Mesona_chinensis0324680.1和Mesona_chinensis0233350.1)。进一步的网络分析表明,5个deg (Mesona_chinensis0324680.1除外)与9个dem之间存在相关性。由此推测,ABC转运蛋白通路及其相关基因和代谢物可能在帕鲁斯特种子老化过程中起重要作用。本研究为深入研究白栎种子的老化机理和安全贮藏奠定了基础。
{"title":"Integrated transcriptomic and metabolomic analyses reveal the ABC transporter-related genes and metabolites involved in seed aging of Platostoma palustre (Blume) A. J. Paton.","authors":"Danfeng Tang, Jingchun Li, Changqian Quan, Meihua Xu, Fan Wei","doi":"10.1186/s12870-025-07967-9","DOIUrl":"https://doi.org/10.1186/s12870-025-07967-9","url":null,"abstract":"<p><p>Platostoma palustre (Blume) A. J. Paton (or Mesona chinensis Benth.), a traditional medicinal and edible plant in China, possesses significant economic and market potential. To investigate the underlying mechanism of seed aging in P. palustre, we utilized artificial aging technology to induce seed aging and assessed seed viability. Furthermore, we employed transcriptome and metabolome sequencing technologies to analyze gene expression and metabolic alterations in artificially aged seeds. The results showed that the germination rate, germination potential, and germination index of the P. palustre seeds decreased significantly after the aging treatment. Transcriptome analysis identified 2,127 differentially expressed genes (DEGs), consisting of 1,623 up-regulated and 504 down-regulated genes. Metabolomic analyses uncovered that a total of 1,919 metabolites were identified under positive ion mode (957) and negative ion mode (962). In total, 747 differentially expressed metabolites (DEMs) were identified, including 362 up-regulated and 385 down-regulated metabolites. An integrative analysis of transcriptome and metabolome indicated that only one pathway (ABC transporters) was significantly enriched in both DEMs and DEGs, and this pathway included 9 DEMs (Deoxyuridine, L-Glutamine, Sparfloxacin, L-Threonine, L-Histidine, Uridine, Guanosine, Ciprofloxacin, and D-Sorbitol) and 6 DEGs (Mesona_chinensis0082240.1, Mesona_chinensis0452530.1, Mesona_chinensis0457550.1, Mesona_chinensis0440370.1, Mesona_chinensis0324680.1, and Mesona_chinensis0233350.1). Further network analyses showed correlations between the 5 DEGs (except for Mesona_chinensis0324680.1) and 9 DEMs. It was inferred that the ABC transporters pathway and its related genes and metabolites might play an important role in seed aging in P. palustre. The current study laid the foundation for an in-depth investigation of the aging mechanism and safe storage of P. palustre seeds.</p>","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":" ","pages":""},"PeriodicalIF":4.8,"publicationDate":"2026-01-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145965361","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}