The process of nitrogen-adaptation root endophytic bacterial rather than phosphorus-adaptation fungal subcommunities construction unveiled the tomato yield improvement under long-term fertilization
Interactions between endophytes (endophytic bacteria and fungi) and plants are crucial in maintaining crop fitness in agricultural systems, particularly in relation to abundant and rare subcommunities involved in community construction. However, the influence of long-term fertilization on heterogene...
Saved in:
| Main Authors: | , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2025-01-01
|
| Series: | Frontiers in Microbiology |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fmicb.2024.1487323/full |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1841525845631434752 |
|---|---|
| author | Xiaoxia Li Xiaoxia Li Xiaoxia Li Muhammad Awais Muhammad Awais Muhammad Awais Shuang Wang Shuang Wang Shuang Wang Shuang Wang Zhu Zhang Zhu Zhang Zhu Zhang Shuning Zhao Shuning Zhao Shuning Zhao Yufeng Liu Yufeng Liu Yufeng Liu Zhouping Sun Zhouping Sun Zhouping Sun Hongdan Fu Hongdan Fu Hongdan Fu Tianlai Li Tianlai Li Tianlai Li |
| author_facet | Xiaoxia Li Xiaoxia Li Xiaoxia Li Muhammad Awais Muhammad Awais Muhammad Awais Shuang Wang Shuang Wang Shuang Wang Shuang Wang Zhu Zhang Zhu Zhang Zhu Zhang Shuning Zhao Shuning Zhao Shuning Zhao Yufeng Liu Yufeng Liu Yufeng Liu Zhouping Sun Zhouping Sun Zhouping Sun Hongdan Fu Hongdan Fu Hongdan Fu Tianlai Li Tianlai Li Tianlai Li |
| author_sort | Xiaoxia Li |
| collection | DOAJ |
| description | Interactions between endophytes (endophytic bacteria and fungi) and plants are crucial in maintaining crop fitness in agricultural systems, particularly in relation to abundant and rare subcommunities involved in community construction. However, the influence of long-term fertilization on heterogeneous rhizosphere nitrogen and phosphorus environments and how these conditions affect the key subcommunities of root endophytes and their community assembly mechanisms remain unclear. We studied the 26th year of a field experiment conducted in a greenhouse with varying levels of nitrogen and phosphorus (CKP0, CKP1, CNP0, CNP1, ONP0, and ONP1) to assess the composition of tomato root endophytes and their impact on yield. We employed 16S rRNA and fungal ITS region amplicon sequencing to investigate the assembly mechanisms of abundant and rare endophytic subcommunities, network correlations, core subcommunity structures, and key species that enhance crop yield. The results indicated that organic manure and phosphorus fertilizers significantly increased the rhizosphere soil nitrogen content, phosphorus content, and phosphorus availability (labile P, moderately labile P, and non-labile P). These fertilizers also significantly affected the composition (based on Bray-Curtis distance) and community assembly processes (βNTI) of endophytic microbial subcommunities. The assembly of both bacterial and fungal subcommunities was primarily governed by dispersal limitation, with community structures being significantly regulated by the content of rhizosphere soil available nitrogen (AN) and moderately labile P (MLP). Rare bacterial and fungal subcommunities complemented the ecological niches of abundant subcommunities in the co-occurrence network, supporting community functions and enhancing network stability. Nitrogen-adapting abundant and rare bacterial subcommunities provided a stronger predictive correlation for tomato yield than phosphorus-adapting fungal subcommunities. Additionally, three core genera of rare endophytic bacteria such as Arthrobacter, Microbacterium, and Sphingobium were identified as potentially involved in improving crop yield improvement. These findings revealed the distinct assembly mechanisms of endophytic microbial subcommunities affected by fertilization, enhancing our understanding of better management practices and controlling endophytes to improve crop yield in intensive agricultural ecosystems. |
| format | Article |
| id | doaj-art-51f1b5b0f86642dea806a6d3d2478d1c |
| institution | Kabale University |
| issn | 1664-302X |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj-art-51f1b5b0f86642dea806a6d3d2478d1c2025-01-17T06:51:10ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2025-01-011510.3389/fmicb.2024.14873231487323The process of nitrogen-adaptation root endophytic bacterial rather than phosphorus-adaptation fungal subcommunities construction unveiled the tomato yield improvement under long-term fertilizationXiaoxia Li0Xiaoxia Li1Xiaoxia Li2Muhammad Awais3Muhammad Awais4Muhammad Awais5Shuang Wang6Shuang Wang7Shuang Wang8Shuang Wang9Zhu Zhang10Zhu Zhang11Zhu Zhang12Shuning Zhao13Shuning Zhao14Shuning Zhao15Yufeng Liu16Yufeng Liu17Yufeng Liu18Zhouping Sun19Zhouping Sun20Zhouping Sun21Hongdan Fu22Hongdan Fu23Hongdan Fu24Tianlai Li25Tianlai Li26Tianlai Li27College of Horticulture, Shenyang Agricultural University, Shenyang, ChinaKey Laboratory of Protected Horticulture of Education Ministry and Liaoning Province, Shenyang, ChinaNational and Local Joint Engineering Research Center of Northern Horticultural Facilities Design and Application Technology, Shenyang, ChinaCollege of Horticulture, Shenyang Agricultural University, Shenyang, ChinaKey Laboratory of Protected Horticulture of Education Ministry and Liaoning Province, Shenyang, ChinaNational and Local Joint Engineering Research Center of Northern Horticultural Facilities Design and Application Technology, Shenyang, ChinaCollege of Horticulture, Shenyang Agricultural University, Shenyang, ChinaKey Laboratory of Protected Horticulture of Education Ministry and Liaoning Province, Shenyang, ChinaNational and Local Joint Engineering Research Center of Northern Horticultural Facilities Design and Application Technology, Shenyang, ChinaCollege of Agriculture, Eastern Liaoning University, Dandong, Liaoning, ChinaCollege of Horticulture, Shenyang Agricultural University, Shenyang, ChinaKey Laboratory of Protected Horticulture of Education Ministry and Liaoning Province, Shenyang, ChinaNational and Local Joint Engineering Research Center of Northern Horticultural Facilities Design and Application Technology, Shenyang, ChinaCollege of Horticulture, Shenyang Agricultural University, Shenyang, ChinaKey Laboratory of Protected Horticulture of Education Ministry and Liaoning Province, Shenyang, ChinaNational and Local Joint Engineering Research Center of Northern Horticultural Facilities Design and Application Technology, Shenyang, ChinaCollege of Horticulture, Shenyang Agricultural University, Shenyang, ChinaKey Laboratory of Protected Horticulture of Education Ministry and Liaoning Province, Shenyang, ChinaNational and Local Joint Engineering Research Center of Northern Horticultural Facilities Design and Application Technology, Shenyang, ChinaCollege of Horticulture, Shenyang Agricultural University, Shenyang, ChinaKey Laboratory of Protected Horticulture of Education Ministry and Liaoning Province, Shenyang, ChinaNational and Local Joint Engineering Research Center of Northern Horticultural Facilities Design and Application Technology, Shenyang, ChinaCollege of Horticulture, Shenyang Agricultural University, Shenyang, ChinaKey Laboratory of Protected Horticulture of Education Ministry and Liaoning Province, Shenyang, ChinaNational and Local Joint Engineering Research Center of Northern Horticultural Facilities Design and Application Technology, Shenyang, ChinaCollege of Horticulture, Shenyang Agricultural University, Shenyang, ChinaKey Laboratory of Protected Horticulture of Education Ministry and Liaoning Province, Shenyang, ChinaNational and Local Joint Engineering Research Center of Northern Horticultural Facilities Design and Application Technology, Shenyang, ChinaInteractions between endophytes (endophytic bacteria and fungi) and plants are crucial in maintaining crop fitness in agricultural systems, particularly in relation to abundant and rare subcommunities involved in community construction. However, the influence of long-term fertilization on heterogeneous rhizosphere nitrogen and phosphorus environments and how these conditions affect the key subcommunities of root endophytes and their community assembly mechanisms remain unclear. We studied the 26th year of a field experiment conducted in a greenhouse with varying levels of nitrogen and phosphorus (CKP0, CKP1, CNP0, CNP1, ONP0, and ONP1) to assess the composition of tomato root endophytes and their impact on yield. We employed 16S rRNA and fungal ITS region amplicon sequencing to investigate the assembly mechanisms of abundant and rare endophytic subcommunities, network correlations, core subcommunity structures, and key species that enhance crop yield. The results indicated that organic manure and phosphorus fertilizers significantly increased the rhizosphere soil nitrogen content, phosphorus content, and phosphorus availability (labile P, moderately labile P, and non-labile P). These fertilizers also significantly affected the composition (based on Bray-Curtis distance) and community assembly processes (βNTI) of endophytic microbial subcommunities. The assembly of both bacterial and fungal subcommunities was primarily governed by dispersal limitation, with community structures being significantly regulated by the content of rhizosphere soil available nitrogen (AN) and moderately labile P (MLP). Rare bacterial and fungal subcommunities complemented the ecological niches of abundant subcommunities in the co-occurrence network, supporting community functions and enhancing network stability. Nitrogen-adapting abundant and rare bacterial subcommunities provided a stronger predictive correlation for tomato yield than phosphorus-adapting fungal subcommunities. Additionally, three core genera of rare endophytic bacteria such as Arthrobacter, Microbacterium, and Sphingobium were identified as potentially involved in improving crop yield improvement. These findings revealed the distinct assembly mechanisms of endophytic microbial subcommunities affected by fertilization, enhancing our understanding of better management practices and controlling endophytes to improve crop yield in intensive agricultural ecosystems.https://www.frontiersin.org/articles/10.3389/fmicb.2024.1487323/fullendophytecommunity assemblyabundant microbial taxarare microbial taxasolar greenhouse |
| spellingShingle | Xiaoxia Li Xiaoxia Li Xiaoxia Li Muhammad Awais Muhammad Awais Muhammad Awais Shuang Wang Shuang Wang Shuang Wang Shuang Wang Zhu Zhang Zhu Zhang Zhu Zhang Shuning Zhao Shuning Zhao Shuning Zhao Yufeng Liu Yufeng Liu Yufeng Liu Zhouping Sun Zhouping Sun Zhouping Sun Hongdan Fu Hongdan Fu Hongdan Fu Tianlai Li Tianlai Li Tianlai Li The process of nitrogen-adaptation root endophytic bacterial rather than phosphorus-adaptation fungal subcommunities construction unveiled the tomato yield improvement under long-term fertilization Frontiers in Microbiology endophyte community assembly abundant microbial taxa rare microbial taxa solar greenhouse |
| title | The process of nitrogen-adaptation root endophytic bacterial rather than phosphorus-adaptation fungal subcommunities construction unveiled the tomato yield improvement under long-term fertilization |
| title_full | The process of nitrogen-adaptation root endophytic bacterial rather than phosphorus-adaptation fungal subcommunities construction unveiled the tomato yield improvement under long-term fertilization |
| title_fullStr | The process of nitrogen-adaptation root endophytic bacterial rather than phosphorus-adaptation fungal subcommunities construction unveiled the tomato yield improvement under long-term fertilization |
| title_full_unstemmed | The process of nitrogen-adaptation root endophytic bacterial rather than phosphorus-adaptation fungal subcommunities construction unveiled the tomato yield improvement under long-term fertilization |
| title_short | The process of nitrogen-adaptation root endophytic bacterial rather than phosphorus-adaptation fungal subcommunities construction unveiled the tomato yield improvement under long-term fertilization |
| title_sort | process of nitrogen adaptation root endophytic bacterial rather than phosphorus adaptation fungal subcommunities construction unveiled the tomato yield improvement under long term fertilization |
| topic | endophyte community assembly abundant microbial taxa rare microbial taxa solar greenhouse |
| url | https://www.frontiersin.org/articles/10.3389/fmicb.2024.1487323/full |
| work_keys_str_mv | AT xiaoxiali theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT xiaoxiali theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT xiaoxiali theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT muhammadawais theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT muhammadawais theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT muhammadawais theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT shuangwang theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT shuangwang theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT shuangwang theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT shuangwang theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT zhuzhang theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT zhuzhang theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT zhuzhang theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT shuningzhao theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT shuningzhao theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT shuningzhao theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT yufengliu theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT yufengliu theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT yufengliu theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT zhoupingsun theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT zhoupingsun theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT zhoupingsun theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT hongdanfu theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT hongdanfu theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT hongdanfu theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT tianlaili theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT tianlaili theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT tianlaili theprocessofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT xiaoxiali processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT xiaoxiali processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT xiaoxiali processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT muhammadawais processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT muhammadawais processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT muhammadawais processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT shuangwang processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT shuangwang processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT shuangwang processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT shuangwang processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT zhuzhang processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT zhuzhang processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT zhuzhang processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT shuningzhao processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT shuningzhao processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT shuningzhao processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT yufengliu processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT yufengliu processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT yufengliu processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT zhoupingsun processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT zhoupingsun processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT zhoupingsun processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT hongdanfu processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT hongdanfu processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT hongdanfu processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT tianlaili processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT tianlaili processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization AT tianlaili processofnitrogenadaptationrootendophyticbacterialratherthanphosphorusadaptationfungalsubcommunitiesconstructionunveiledthetomatoyieldimprovementunderlongtermfertilization |