Unveiling Endophytic Bacterial Community Structures of Different Rice Cultivars Grown in a Cadmium-Contaminated Paddy Field
Endophytic bacteria play potentially important roles in the processes of plant adaptation to the environment. Understanding the composition and dynamics of endophytic bacterial communities under heavy metal (HM) stress can reveal their impacts on host development and stress tolerance. In this study,...
| Main Authors: | , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2021-11-01
|
| Series: | Frontiers in Microbiology |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fmicb.2021.756327/full |
| _version_ | 1818402342813302784 |
|---|---|
| author | Chaoqun Chu Meiyu Fan Chongyang Song Ni Li Chao Zhang Shaowei Fu Weiping Wang Zhiwei Yang |
| author_facet | Chaoqun Chu Meiyu Fan Chongyang Song Ni Li Chao Zhang Shaowei Fu Weiping Wang Zhiwei Yang |
| author_sort | Chaoqun Chu |
| collection | DOAJ |
| description | Endophytic bacteria play potentially important roles in the processes of plant adaptation to the environment. Understanding the composition and dynamics of endophytic bacterial communities under heavy metal (HM) stress can reveal their impacts on host development and stress tolerance. In this study, we investigated root endophytic bacterial communities of different rice cultivars grown in a cadmium (Cd)-contaminated paddy field. These rice cultivars are classified into low (RBQ, 728B, and NX1B) and high (BB and S95B) levels of Cd-accumulating capacity. Our metagenomic analysis targeting 16S rRNA gene sequence data reveals that Proteobacteria, Firmicutes, Actinobacteria, Acidobacteria, Bacteroidetes, and Spirochaetes are predominant root endophytic bacterial phyla of the five rice cultivars that we studied. Principal coordinate analysis shows that the developmental stage of rice governs a larger source of variation in the bacterial communities compared to that of any specific rice cultivar or of the root Cd content. Endophytic bacterial communities during the reproductive stage of rice form a more highly interconnected network and exhibit higher operational taxonomic unit numbers, diversities, and abundance than those during the vegetative stage. Forty-five genera are significantly correlated with Cd content in rice root, notably including positive-correlating Geobacter and Haliangium; and negative-correlating Pseudomonas and Streptacidiphilus. Furthermore, Phylogenetic Investigation of Communities by Reconstruction of Unobserved States analysis shows that functional pathways, such as biosynthesis of siderophore and type II polyketide products, are significantly enhanced during the reproductive stage compared to those during the vegetative stage under Cd stress. The isolated endophytic bacteria from the Cd-contaminated rice roots display high Cd resistance and multiple traits that may promote plant growth, suggesting their potential application in alleviating HM stress on plants. This study describes in detail for the first time the assemblage of the bacterial endophytomes of rice roots under Cd stress and may provide insights into the interactions among endophytes, plants, and HM contamination. |
| first_indexed | 2024-12-14T08:06:51Z |
| format | Article |
| id | doaj.art-6081014b7677407b89be03fb386441f4 |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-12-14T08:06:51Z |
| publishDate | 2021-11-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj.art-6081014b7677407b89be03fb386441f42022-12-21T23:10:09ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2021-11-011210.3389/fmicb.2021.756327756327Unveiling Endophytic Bacterial Community Structures of Different Rice Cultivars Grown in a Cadmium-Contaminated Paddy FieldChaoqun Chu0Meiyu Fan1Chongyang Song2Ni Li3Chao Zhang4Shaowei Fu5Weiping Wang6Zhiwei Yang7College of Life Sciences, Capital Normal University, Beijing, ChinaCollege of Life Sciences, Capital Normal University, Beijing, ChinaCollege of Life Sciences, Capital Normal University, Beijing, ChinaState Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, ChinaState Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, ChinaCollege of Life Sciences, Capital Normal University, Beijing, ChinaState Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, ChinaCollege of Life Sciences, Capital Normal University, Beijing, ChinaEndophytic bacteria play potentially important roles in the processes of plant adaptation to the environment. Understanding the composition and dynamics of endophytic bacterial communities under heavy metal (HM) stress can reveal their impacts on host development and stress tolerance. In this study, we investigated root endophytic bacterial communities of different rice cultivars grown in a cadmium (Cd)-contaminated paddy field. These rice cultivars are classified into low (RBQ, 728B, and NX1B) and high (BB and S95B) levels of Cd-accumulating capacity. Our metagenomic analysis targeting 16S rRNA gene sequence data reveals that Proteobacteria, Firmicutes, Actinobacteria, Acidobacteria, Bacteroidetes, and Spirochaetes are predominant root endophytic bacterial phyla of the five rice cultivars that we studied. Principal coordinate analysis shows that the developmental stage of rice governs a larger source of variation in the bacterial communities compared to that of any specific rice cultivar or of the root Cd content. Endophytic bacterial communities during the reproductive stage of rice form a more highly interconnected network and exhibit higher operational taxonomic unit numbers, diversities, and abundance than those during the vegetative stage. Forty-five genera are significantly correlated with Cd content in rice root, notably including positive-correlating Geobacter and Haliangium; and negative-correlating Pseudomonas and Streptacidiphilus. Furthermore, Phylogenetic Investigation of Communities by Reconstruction of Unobserved States analysis shows that functional pathways, such as biosynthesis of siderophore and type II polyketide products, are significantly enhanced during the reproductive stage compared to those during the vegetative stage under Cd stress. The isolated endophytic bacteria from the Cd-contaminated rice roots display high Cd resistance and multiple traits that may promote plant growth, suggesting their potential application in alleviating HM stress on plants. This study describes in detail for the first time the assemblage of the bacterial endophytomes of rice roots under Cd stress and may provide insights into the interactions among endophytes, plants, and HM contamination.https://www.frontiersin.org/articles/10.3389/fmicb.2021.756327/fullriceendophytic bacteriacommunity structureco-occurrence networkdevelopmental stagecadmium contamination |
| spellingShingle | Chaoqun Chu Meiyu Fan Chongyang Song Ni Li Chao Zhang Shaowei Fu Weiping Wang Zhiwei Yang Unveiling Endophytic Bacterial Community Structures of Different Rice Cultivars Grown in a Cadmium-Contaminated Paddy Field Frontiers in Microbiology rice endophytic bacteria community structure co-occurrence network developmental stage cadmium contamination |
| title | Unveiling Endophytic Bacterial Community Structures of Different Rice Cultivars Grown in a Cadmium-Contaminated Paddy Field |
| title_full | Unveiling Endophytic Bacterial Community Structures of Different Rice Cultivars Grown in a Cadmium-Contaminated Paddy Field |
| title_fullStr | Unveiling Endophytic Bacterial Community Structures of Different Rice Cultivars Grown in a Cadmium-Contaminated Paddy Field |
| title_full_unstemmed | Unveiling Endophytic Bacterial Community Structures of Different Rice Cultivars Grown in a Cadmium-Contaminated Paddy Field |
| title_short | Unveiling Endophytic Bacterial Community Structures of Different Rice Cultivars Grown in a Cadmium-Contaminated Paddy Field |
| title_sort | unveiling endophytic bacterial community structures of different rice cultivars grown in a cadmium contaminated paddy field |
| topic | rice endophytic bacteria community structure co-occurrence network developmental stage cadmium contamination |
| url | https://www.frontiersin.org/articles/10.3389/fmicb.2021.756327/full |
| work_keys_str_mv | AT chaoqunchu unveilingendophyticbacterialcommunitystructuresofdifferentricecultivarsgrowninacadmiumcontaminatedpaddyfield AT meiyufan unveilingendophyticbacterialcommunitystructuresofdifferentricecultivarsgrowninacadmiumcontaminatedpaddyfield AT chongyangsong unveilingendophyticbacterialcommunitystructuresofdifferentricecultivarsgrowninacadmiumcontaminatedpaddyfield AT nili unveilingendophyticbacterialcommunitystructuresofdifferentricecultivarsgrowninacadmiumcontaminatedpaddyfield AT chaozhang unveilingendophyticbacterialcommunitystructuresofdifferentricecultivarsgrowninacadmiumcontaminatedpaddyfield AT shaoweifu unveilingendophyticbacterialcommunitystructuresofdifferentricecultivarsgrowninacadmiumcontaminatedpaddyfield AT weipingwang unveilingendophyticbacterialcommunitystructuresofdifferentricecultivarsgrowninacadmiumcontaminatedpaddyfield AT zhiweiyang unveilingendophyticbacterialcommunitystructuresofdifferentricecultivarsgrowninacadmiumcontaminatedpaddyfield |