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Article ; Online: Analysis of diversity and function of epiphytic bacterial communities associated with macrophytes using a metagenomic approach.

Wang, Xin / Liu, Yi / Qing, Chun / Zeng, Jin / Dong, Jixing / Xia, Pinhua

2024 Volume 87, Issue 1, Page(s) 37

Abstract: Epiphytic bacteria constitute a vital component of aquatic ecosystems, pivotal in regulating elemental cycling. Despite their significance, the diversity and functions of epiphytic bacterial communities adhering to various submerged macrophytes remain ... ...

Abstract	Epiphytic bacteria constitute a vital component of aquatic ecosystems, pivotal in regulating elemental cycling. Despite their significance, the diversity and functions of epiphytic bacterial communities adhering to various submerged macrophytes remain largely unexplored. In this study, we employed a metagenomic approach to investigate the diversity and function of epiphytic bacterial communities associated with six submerged macrophytes: Ceratophyllum demersum, Hydrilla verticillata, Myriophyllum verticillatum, Potamogeton lucens, Stuckenia pectinata, and Najas marina. The results revealed that the predominant epiphytic bacterial species for each plant type included Pseudomonas spp., Microbacterium spp., and Stenotrophomonas rhizophila. Multiple comparisons and linear discriminant analysis effect size indicated a significant divergence in the community composition of epiphytic bacteria among the six submerged macrophytes, with 0.3-1% of species uniquely identified. Epiphytic bacterial richness associated with S. pectinata significantly differed from that of both C. demersum and H. verticillata, although no significant differences were observed in diversity and evenness. Functionally, notable variations were observed in the relative abundances of genes associated with carbon, nitrogen, and phosphorus cycling within epiphytic bacterial communities on the submerged macrophyte hosts. Among these communities, H. verticillata exhibited enrichment in genes related to the 3-hydroxypropionate bicycle and nitrogen assimilation, translocation, and denitrification. Conversely, M. verticillatum showcased enrichment in genes linked to the reductive citric acid cycle (Arnon-Buchanan cycle), reductive pentose phosphate cycle (Calvin cycle), polyphosphate degradation, and organic nitrogen metabolism. In summary, our findings offer valuable insights into the diversity and function of epiphytic bacteria on submerged macrophyte leaves, shedding light on their roles in lake ecosystems.
MeSH term(s)	Ecosystem ; Lakes ; Metagenome ; Bacteria/genetics ; Bacteria/metabolism ; Potamogetonaceae/genetics ; Potamogetonaceae/microbiology ; Nitrogen/metabolism
Chemical Substances	Nitrogen (N762921K75)
Language	English
Publishing date	2024-01-29
Publishing country	United States
Document type	Journal Article
ZDB-ID	1462065-0
ISSN	1432-184X ; 0095-3628
ISSN (online)	1432-184X
ISSN	0095-3628
DOI	10.1007/s00248-024-02346-7
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Article: Loss of submerged macrophytes in shallow lakes alters bacterial and archaeal community structures, and reduces their co-occurrence networks connectivity and complexity.

Liu, Jiahui / Huang, Xianfei / Jiang, Xin / Qing, Chun / Li, Yue / Xia, Pinhua

Frontiers in microbiology

2024 Volume 15, Page(s) 1380805

Abstract: Introduction: Bacteria and archaea are important components in shallow lake ecosystems and are crucial for biogeochemical cycling. While the submerged macrophyte loss is widespread in shallow lakes, the effect on the bacteria and archaea in the sediment ...

Abstract	Introduction: Bacteria and archaea are important components in shallow lake ecosystems and are crucial for biogeochemical cycling. While the submerged macrophyte loss is widespread in shallow lakes, the effect on the bacteria and archaea in the sediment and water is not yet widely understood. Methods: In this study, 16S rRNA gene sequencing was used to explore the bacteria and archaea in samples taken from the sediment and water in the submerged macrophyte abundant (MA) and submerged macrophyte loss (ML) areas of Caohai Lake, Guizhou, China. Results: The results showed that the dominant bacterial phyla were Discussion: This study assesses the impacts of submerged macrophyte loss on bacteria and archaea in lakes from microbial perspective, which can help to provide further theoretical basis for microbiological research and submerged macrophytes restoration in shallow lakes.
Language	English
Publishing date	2024-03-26
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2587354-4
ISSN	1664-302X
ISSN	1664-302X
DOI	10.3389/fmicb.2024.1380805
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Article ; Online: Temporal Succession of Bacterial Community Structure, Co-occurrence Patterns, and Community Assembly Process in Epiphytic Biofilms of Submerged Plants in a Plateau Lake

Shi, Lei / Xia, Pinhua / Lin, Tao / Li, Guoqing / Wang, Tianyou / Du, Xin

Microb Ecol. 2023 Jan., v. 85, no. 1 p.87-99

2023

Abstract: In shallow macrophytic lakes, epiphytic biofilms are formed on the surface of submerged plant stems and leaves because of algae and bacterial accumulation. Epiphytic biofilms significantly impact the health of the host vegetation and the biogeochemical ... ...

Abstract	In shallow macrophytic lakes, epiphytic biofilms are formed on the surface of submerged plant stems and leaves because of algae and bacterial accumulation. Epiphytic biofilms significantly impact the health of the host vegetation and the biogeochemical cycling of lake elements. However, community diversity, species interactions, and community assembly mechanisms in epiphytic bacterial communities (EBCs) of plants during different growth periods are not well understood. We investigated the successional dynamics, co-occurrence patterns, and community assembly processes of epiphytic biofilm bacterial communities of submerged plants, Najas marina and Potamogeton lucens, from July to November 2020. The results showed a significant seasonal variation in EBC diversity and richness. Community diversity and richness increased from July to November, and the temperature was the most important driving factor for predicting seasonal changes in EBC community structure. Co-occurrence network analysis revealed that the average degree and graph density of the network increased from July to November, indicating that the complexity of the EBC network increased. The bacterial community co-occurrence network was limited by temperature, pH, and transparency. The phylogeny-based null model analysis showed that deterministic processes dominated the microbial community assembly in different periods, increasing their contribution. In addition, we found that as the dominance of deterministic processes increased, the microbial co-occurrence links increased, and the potential interrelationships between species became stronger. Thus, the findings provide insights into the seasonal variability of EBC assemblage and co-occurrence patterns in lacustrine ecosystems.
Keywords	Najas marina ; Potamogeton lucens ; bacterial communities ; biofilm ; community structure ; epiphytes ; lakes ; pH ; seasonal variation ; submerged aquatic plants ; temperature ; vegetation
Language	English
Dates of publication	2023-01
Size	p. 87-99.
Publishing place	Springer US
Document type	Article ; Online
ZDB-ID	1462065-0
ISSN	1432-184X ; 0095-3628
ISSN (online)	1432-184X
ISSN	0095-3628
DOI	10.1007/s00248-021-01956-9
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Article: Shifts of sediment bacterial community and respiration along a successional gradient in a typical karst plateau lake wetland (China)

Xia, Pinhua / Zhang, Jian / Liu, Jinbo / Yu, Lifei

Journal of oceanology and limnology. 2021 May, v. 39, no. 3

2021

Abstract: Bacteria are important regulators of carbon cycling in lakes and are central to sediment ecosystem processes. However, the sediment microbial communities and their respiratory responses to the lake wetland succession are poorly understood. In this study, ...

Abstract	Bacteria are important regulators of carbon cycling in lakes and are central to sediment ecosystem processes. However, the sediment microbial communities and their respiratory responses to the lake wetland succession are poorly understood. In this study, we collected sediment samples from four different succession points (the Potamogeton lucens zone, the Scirpus tabernaemontani zone, the Scirpus triqueter zone, and the Juncus effusus zone) in the Caohai Wetland of the Guizhou Plateau (China). The bacterial communities at these succession points were studied using a high-throughput sequencing approach. The sediment microbial respiration (SR) was measured using static chambers in the field and basal respiration (BR) was determined in the laboratory. The results show that the dominant bacterial taxa in the sediment was Proteobacteria (34.7%), Chloroflexi (17.8%), Bacteroidetes (7.3%), Acidobacteria (6.6%), and Cyanobacteria (6.1%). Principal coordinate analysis showed that the microbial community structure differs significantly at different sampling points along the successional gradient, indicating that the bacterial community structure is sensitive to the lake wetland succession. Different hydrological regimes and soil characteristics such as [Formula: see text], Fe²⁺, Mn²⁺, and sediment organic carbon (SOC) content may be important factors responsible for the differences in the sediment microbial characteristics of the different successional stages in the Caohai wetland. Additionally, it was found that the SR increased significantly from the P. lucens zone to the J. effusus zone, but BR had the opposite response. The shifts in the bacterial community structure along the successional gradient may be the main reason for the observed differences in sediment respiration.
Keywords	Acidobacteria ; Bacteroidetes ; Chloroflexi ; Cyanobacteria ; Juncus effusus ; Potamogeton lucens ; Proteobacteria ; Schoenoplectus tabernaemontani ; Schoenoplectus triqueter ; bacterial communities ; community structure ; ecosystems ; hydrology ; karsts ; lakes ; limnology ; multidimensional scaling ; oceanography ; organic carbon ; sediments ; wetlands ; China
Language	English
Dates of publication	2021-05
Size	p. 880-891.
Publishing place	Science Press
Document type	Article
ISSN	2096-5508
DOI	10.1007/s00343-020-0073-y
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Article: Assessment of heavy metal pollution and exposure risk for migratory birds- A case study of Caohai wetland in Guizhou Plateau (China)

Xia, Pinhua / Ma, Li / Yi, Yin / Lin, Tao

Environmental pollution. 2021 Apr. 15, v. 275

2021

Abstract: Increasing heavy metal pollution in wetland ecosystems around the world pose significant health risks to waterbirds, especially the endangered species. We analyzed heavy metal pollution in bird foraging area of Caohai wetland in Guizhou Plateau (China), ... ...

Abstract	Increasing heavy metal pollution in wetland ecosystems around the world pose significant health risks to waterbirds, especially the endangered species. We analyzed heavy metal pollution in bird foraging area of Caohai wetland in Guizhou Plateau (China), and used an integrated exposure risk model for assessing heavy metal (Cd, Pb, Cr, Ni, Zn, Sb) exposure risk in birds from the soil, water, plants and benthic invertebrates. There is considerable variation in the extent of heavy metal contamination across the different sampling sites, and Cd and Sb are the main contaminants. The mussel Anodonta showed greater heavy metal accumulation (except for Zn) compared to the snail species C. cathayensis. The different plant species also varied in terms of amount for accumulated heavy metals. The phytophagous together with omnivorous birds were exposed to Cd, Pb, Zn and Ni through plants rather than the soil, whereas the maximum Zn exposure in the omnivorous and carnivorous birds was through consumption of benthic invertebrates. Furthermore, the phytophagous black-necked cranes (Grus nigricollis) were less risk to heavy metal exposure compared to the omnivorous bar-headed goose (Anser indicus) and carnivorous ruddy shelducks (Tadorna ferruginea). The exposure risk of Cr (8.1) was highest, followed by Pb (5.1), Zn (3.8), Sb (1.0), Cd (0.33) and Ni (0.28). The heavy metal assessment heavy metal exposure risk for migratory birds should take into account the exposure from food and soil. Our findings provide new insights into developing measures to minimize heavy metal contamination in migratory birds.
Keywords	Anodonta ; Anser indicus ; Grus nigricollis ; Tadorna ferruginea ; carnivores ; case studies ; endangered species ; heavy metals ; migratory behavior ; models ; mussels ; omnivores ; pollution ; risk ; snails ; soil ; water birds ; wetlands ; China
Language	English
Dates of publication	2021-0415
Publishing place	Elsevier Ltd
Document type	Article
Note	NAL-AP-2-clean
ZDB-ID	280652-6
ISSN	1873-6424 ; 0013-9327 ; 0269-7491
ISSN (online)	1873-6424
ISSN	0013-9327 ; 0269-7491
DOI	10.1016/j.envpol.2021.116564
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Article ; Online: Assessment of heavy metal pollution and exposure risk for migratory birds- A case study of Caohai wetland in Guizhou Plateau (China).

Xia, Pinhua / Ma, Li / Yi, Yin / Lin, Tao

Environmental pollution (Barking, Essex : 1987)

2021 Volume 275, Page(s) 116564

Abstract	Increasing heavy metal pollution in wetland ecosystems around the world pose significant health risks to waterbirds, especially the endangered species. We analyzed heavy metal pollution in bird foraging area of Caohai wetland in Guizhou Plateau (China), and used an integrated exposure risk model for assessing heavy metal (Cd, Pb, Cr, Ni, Zn, Sb) exposure risk in birds from the soil, water, plants and benthic invertebrates. There is considerable variation in the extent of heavy metal contamination across the different sampling sites, and Cd and Sb are the main contaminants. The mussel Anodonta showed greater heavy metal accumulation (except for Zn) compared to the snail species C. cathayensis. The different plant species also varied in terms of amount for accumulated heavy metals. The phytophagous together with omnivorous birds were exposed to Cd, Pb, Zn and Ni through plants rather than the soil, whereas the maximum Zn exposure in the omnivorous and carnivorous birds was through consumption of benthic invertebrates. Furthermore, the phytophagous black-necked cranes (Grus nigricollis) were less risk to heavy metal exposure compared to the omnivorous bar-headed goose (Anser indicus) and carnivorous ruddy shelducks (Tadorna ferruginea). The exposure risk of Cr (8.1) was highest, followed by Pb (5.1), Zn (3.8), Sb (1.0), Cd (0.33) and Ni (0.28). The heavy metal assessment heavy metal exposure risk for migratory birds should take into account the exposure from food and soil. Our findings provide new insights into developing measures to minimize heavy metal contamination in migratory birds.
MeSH term(s)	Animals ; Birds ; China ; Ecosystem ; Environmental Monitoring ; Metals, Heavy/analysis ; Risk Assessment ; Soil ; Soil Pollutants/analysis ; Wetlands
Chemical Substances	Metals, Heavy ; Soil ; Soil Pollutants
Language	English
Publishing date	2021-02-04
Publishing country	England
Document type	Journal Article
ZDB-ID	280652-6
ISSN	1873-6424 ; 0013-9327 ; 0269-7491
ISSN (online)	1873-6424
ISSN	0013-9327 ; 0269-7491
DOI	10.1016/j.envpol.2021.116564
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Article ; Online: Photocatalytic degradation of tetracycline hydrochloride by a Fe3O4/g-C3N4/rGO magnetic nanocomposite mechanism: modeling and optimization

Shan, Junyue / Wu, Xianliang / Li, Caifang / Hu, Jiwei / Zhang, Zhenming / Liu, Huijuan / Xia, Pinhua / Huang, Xianfei

Environ Sci Pollut Res. 2023 Jan., v. 30, no. 3 p.8098-8109

2023

Abstract: The photocatalytic degradation of antibiotics requires a good separation efficiency of photogenerated electron–hole pairs and a wide visible light absorption range. Current studies have discussed the successful preparation of ferroferric oxide/graphite ... ...

Abstract	The photocatalytic degradation of antibiotics requires a good separation efficiency of photogenerated electron–hole pairs and a wide visible light absorption range. Current studies have discussed the successful preparation of ferroferric oxide/graphite carbon nitride/reduced graphene oxide (Fe₃O₄/g-C₃N₄/rGO). The phase structure and morphology of the Fe₃O₄/g-C₃N₄/rGO composites were characterized by XRD, HR-TEM, SEM, and EDS. The obtained composites were used to degrade tetracycline hydrochloride (TCH) to evaluate its photocatalytic activity. The effects of four variables on the degradation of TCH were analyzed by the response surface method and artificial intelligence (gradient regression tree, random forest, artificial neural network, etc.). The results showed that the graphite carbon nitride in the catalyst maintained its original structure and that the photocatalytic activity was significantly improved. The degradation rate of TCH was 86.7% under the optimal conditions (the Fe₃O₄/g-C₃N₄/rGO dosage was 0.1 g, pH = 7.0, the initial concentration of TCH was 20 mg/L, and the visible light irradiation time was 60 min). At the same time, the degradation rate of TCH changed little after the material was used five times, which indicates that the stability and recyclability of the Fe₃O₄/g-C₃N₄/rGO photocatalyst were excellent. Finally, a possible photocatalytic mechanism of the Fe₃O₄/g-C₃N₄/rGO photocatalyst is proposed in this paper.
Keywords	absorption ; artificial intelligence ; carbon nitride ; graphene ; graphene oxide ; irradiation ; light ; magnetism ; nanocomposites ; neural networks ; pH ; photocatalysis ; photocatalysts ; regression analysis ; response surface methodology ; tetracycline
Language	English
Dates of publication	2023-01
Size	p. 8098-8109.
Publishing place	Springer Berlin Heidelberg
Document type	Article ; Online
ZDB-ID	1178791-0
ISSN	1614-7499 ; 0944-1344
ISSN (online)	1614-7499
ISSN	0944-1344
DOI	10.1007/s11356-022-22770-x
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Article: Community structure and assembly of denitrifying bacteria in epiphytic biofilms in a freshwater lake ecosystem

Li, Guoqing / Yan, Dingbo / Xia, Pinhua / Cao, Haipeng / Lin, Tao / Yi, Yin

Journal of oceanology and limnology. 2022 May, v. 40, no. 3

2022

Abstract: Denitrifying bacteria are a crucial component of aquatic ecosystem in nitrogen cycle. However, the denitrifying bacterial community dynamics and structure in epiphytic biofilms remain unexplored. The abundance of denitrification gene (nir) and structure ... ...

Abstract	Denitrifying bacteria are a crucial component of aquatic ecosystem in nitrogen cycle. However, the denitrifying bacterial community dynamics and structure in epiphytic biofilms remain unexplored. The abundance of denitrification gene (nir) and structure of nirS-denitrifying bacterial community in the epiphytic biofilms collected in July and November of 2018 from a typical plateau lake (Caohai Wetland, Guizhou, China) were studied by Real-time Quantitative Polymerase Chain Reaction (qPCR) and high-throughput sequencing. Results show that the gene abundance of nirK was higher than that of nirS (P<0.05), and it was significantly different during the growth period (July) than the decline period (November). The denitrifying bacterial species was similar in the two months and shared 76.18% of OTUs. Proteobacteria (56.55%±22.15%) was the dominant phylum in all the samples. Epiphytic biofilms between growth period and decline period displayed significantly different microbial community structures due to differences in species abundance. Water temperature was the crucial factor that affected the denitrifying microbial community structure in our study. Environmental factors explain only partially the dynamic characteristics of denitrifying microbial communities, implying that the stochastic processes affected the construction of denitrifying microbial communities. As the null model analysis results show, dispersal limitation (stochastic) and undominated processes significantly influenced the assembly of denitrifying microbial communities. This study broadened our understanding of the denitrifying bacterial community structure and its function on epiphytic biofilms in freshwater ecosystems with new information provided.
Keywords	Proteobacteria ; bacterial communities ; biofilm ; community structure ; decline ; denitrification ; epiphytes ; freshwater ; freshwater lakes ; genes ; limnology ; nitrogen cycle ; oceanography ; quantitative polymerase chain reaction ; species abundance ; water temperature ; wetlands ; China
Language	English
Dates of publication	2022-05
Size	p. 1039-1050.
Publishing place	Science Press
Document type	Article
ISSN	2096-5508
DOI	10.1007/s00343-021-1084-z
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Article: Prokaryotic Community Succession in Bulk and Rhizosphere Soils Along a High-Elevation Glacier Retreat Chronosequence on the Tibetan Plateau.

Liu, Jinbo / Kong, Weidong / Xia, Pinhua / Zhu, Chunmao / Li, Xiangzhen

Frontiers in microbiology

2021 Volume 12, Page(s) 736407

Abstract: Early colonization and succession of soil microbial communities are essential for soil development and nutrient accumulation. Herein we focused on the changes in pioneer prokaryotic communities in rhizosphere and bulk soils along the high-elevation ... ...

Abstract	Early colonization and succession of soil microbial communities are essential for soil development and nutrient accumulation. Herein we focused on the changes in pioneer prokaryotic communities in rhizosphere and bulk soils along the high-elevation glacier retreat chronosequence, the northern Himalayas, Tibetan Plateau. Rhizosphere soils showed substantially higher levels of total organic carbon, total nitrogen, ammonium, and nitrate than bulk soils. The dominant prokaryotes were Proteobacteria, Actinobacteria, Acidobacteria, Chloroflexi, Crenarchaeota, Bacteroidetes, and Planctomycetes, which totally accounted for more than 75% in relative abundance. The dominant genus
Language	English
Publishing date	2021-10-08
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2587354-4
ISSN	1664-302X
ISSN	1664-302X
DOI	10.3389/fmicb.2021.736407
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Article ; Online: Temporal Succession of Bacterial Community Structure, Co-occurrence Patterns, and Community Assembly Process in Epiphytic Biofilms of Submerged Plants in a Plateau Lake.

Shi, Lei / Xia, Pinhua / Lin, Tao / Li, Guoqing / Wang, Tianyou / Du, Xin

Microbial ecology

2022 Volume 85, Issue 1, Page(s) 87–99

Abstract	In shallow macrophytic lakes, epiphytic biofilms are formed on the surface of submerged plant stems and leaves because of algae and bacterial accumulation. Epiphytic biofilms significantly impact the health of the host vegetation and the biogeochemical cycling of lake elements. However, community diversity, species interactions, and community assembly mechanisms in epiphytic bacterial communities (EBCs) of plants during different growth periods are not well understood. We investigated the successional dynamics, co-occurrence patterns, and community assembly processes of epiphytic biofilm bacterial communities of submerged plants, Najas marina and Potamogeton lucens, from July to November 2020. The results showed a significant seasonal variation in EBC diversity and richness. Community diversity and richness increased from July to November, and the temperature was the most important driving factor for predicting seasonal changes in EBC community structure. Co-occurrence network analysis revealed that the average degree and graph density of the network increased from July to November, indicating that the complexity of the EBC network increased. The bacterial community co-occurrence network was limited by temperature, pH, and transparency. The phylogeny-based null model analysis showed that deterministic processes dominated the microbial community assembly in different periods, increasing their contribution. In addition, we found that as the dominance of deterministic processes increased, the microbial co-occurrence links increased, and the potential interrelationships between species became stronger. Thus, the findings provide insights into the seasonal variability of EBC assemblage and co-occurrence patterns in lacustrine ecosystems.
MeSH term(s)	Lakes/microbiology ; Biofilms ; Microbiota ; Seasons
Language	English
Publishing date	2022-01-07
Publishing country	United States
Document type	Journal Article
ZDB-ID	1462065-0
ISSN	1432-184X ; 0095-3628
ISSN (online)	1432-184X
ISSN	0095-3628
DOI	10.1007/s00248-021-01956-9
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