Co-occurrence Network Reveals the Higher Fragmentation of the Bacterial Community in Kaidu River Than Its Tributaries in Northwestern China

Hu, Yang; Bai, Chengrong; Cai, Jian; Dai, Jiangyu; Shao, Kwang‐Tsao; Tang, Xiangming; Gao, Guang

doi:10.1264/jsme2.me17170

Cited by 28 publications

(20 citation statements)

References 92 publications

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“…Within melt ponds and periglacial rivers, network inference indicated that positive correlations prevailed in the bacterial communities. This correlative pattern is in line with that reported from other habitats, including soil [62], rivers [60], and other glacial environments [26,27]. As previously suggested [37], positive association in a network is interpreted as cross-feeding, co-colonization, and co-aggregation.…”

Section: Higher Competitive and Connected Network Of Bacterial Communsupporting

confidence: 91%

“…In our present study, co-occurrence networks in melt ponds and periglacial rivers suggested that most of the involved nodes belonged to the rare sub-communities. This pattern has previously been reported from other glacial environments in Tibet Plateau [23] and from other habitats, such as soil [58,59], rivers [60], and oceans [61]. Moreover, the over-proportional roles of rare taxa were also shown by our finding that all 7 keystones in melt ponds and 11 out of 12 keystones in periglacial rivers were affiliated with rare OTUs.…”

Section: The Role Of Rare Sub-communities On the Bacterial Communitiesupporting

confidence: 90%

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Contrasting Patterns of the Bacterial Communities in Melting Ponds and Periglacial Rivers of the Zhuxi glacier in the Tibet Plateau

Yao

et al. 2020

Microorganisms

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Since the early 21st century, global climate change has been inducing rapid glacier retreat at an unprecedented rate. In this context, the melt ponds impart increasing unique footprints on the periglacial rivers due to their hydrodynamic connection. Given that bacterial communities control numerous ecosystem processes in the glacial ecosystem, exploring the fate of bacterial communities from melt ponds to periglacial rivers yields key knowledge of the biodiversity and biogeochemistry of glacial ecosystems. Here, we analyzed the bacterial community structure, diversity, and co-occurrence network to reveal the community organization in the Zhuxi glacier in the Tibet Plateau. The results showed that the bacterial communities in melt ponds were significantly lower in alpha-diversity but were significantly higher in beta-diversity than those in periglacial rivers. The rare sub-communities significantly contributed to the stability of the bacterial communities in both habitats. The co-occurrence network inferred that the mutually beneficial relationships predominated in the two networks. Nevertheless, the lower ratio of positive to negative edges in melt ponds than periglacial rivers implicated fiercer competition in the former habitat. Based on the significantly higher value of degree, betweenness, and modules, as well as shorter average path length in melt ponds, we speculated that their bacterial communities are less resilient than those of periglacial rivers.

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Section: Higher Competitive and Connected Network Of Bacterial Communsupporting

confidence: 91%

Section: The Role Of Rare Sub-communities On the Bacterial Communitiesupporting

confidence: 90%

Contrasting Patterns of the Bacterial Communities in Melting Ponds and Periglacial Rivers of the Zhuxi glacier in the Tibet Plateau

Yao

et al. 2020

Microorganisms

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“…This suggested that the other genera respond more strongly to the metabolites produced by these five genera [62]. At the same time, because these bacterial taxa have highly connected nodes, they are recognized as keystone taxa here [14,63]. Compared with other taxa in the network, keystone taxa play an important role in maintaining the network structure [22].…”

Section: Discussionmentioning

confidence: 99%

Impact of long-term industrial contamination on the bacterial communities in urban river sediments

Zhang

et al. 2020

BMC Microbiol

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Background: The contamination of the aquatic environment of urban rivers with industrial wastewater has affected the abiotic conditions and biological activities of the trophic levels of the ecosystem, particularly sediments. However, most current research about microorganism in urban aquatic environments has focused on indicator bacteria related to feces and organic pollution. Meanwhile, they ignored the interactions among microorganisms. To deeply understand the impact of industrial contamination on microbial community, we study the bacterial community structure and diversity in river sediments under the influence of different types of industrial pollution by Illumina MiSeq high-throughput sequencing technology and conduct a more detailed analysis of microbial community structure through co-occurrence networks. Results: The overall community composition and abundance of individual bacterial groups differed between samples. In addition, redundancy analysis indicated that the structure of the bacterial community in river sediments was influenced by a variety of environmental factors. TN, TP, TOC and metals (Cu, Zn and Cd) were the most important driving factors that determined the bacterial community in urban river sediments (P < 0.01). According to PICRUSt analysis, the bacterial communities in different locations had similar overall functional profiles. It is worth noting that the 15 functional genes related to xenobiotics biodegradation and metabolism were the most abundant in the same location. The non-random assembly patterns of bacterial composition in different types of industrially polluted sediments were determined by a co-occurrence network. Environmental conditions resulting from different industrial pollutants may play an important role in determining their co-occurrence patterns of these bacterial taxa. Among them, the bacterial taxa involved in carbon and nitrogen cycles in module I were relatively abundant, and the bacterial taxa in module II were involved in the repair of metal pollution. Conclusions: Our data indicate that long-term potential interactions between different types of industrial pollution and taxa collectively affect the structure of the bacterial community in urban river sediments.

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“…Inland lakes are often separated by land, and even when they are connected by rivers, there are hydrodynamic gradients. The environmental conditions and diversity of microbial communities in these habitats often have significant spatial heterogeneity (13,17,(21)(22)(23)(24). Abundant and rare bacteria differ significantly in their biodiversities (6) and may have discrepant ecological niches and different ecological responses to environmental changes (6,13,20).…”

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confidence: 99%

Geographic Patterns of Bacterioplankton among Lakes of the Middle and Lower Reaches of the Yangtze River Basin, China

Bai

Cai

Zhou

et al. 2020

Appl Environ Microbiol

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The revolution of molecular techniques has revealed that the composition of natural bacterial communities normally includes a few abundant taxa and many rare taxa. Unraveling the mechanisms underlying the spatial assembly process of both abundant and rare bacterial taxa has become a central goal in microbial ecology. Here, we used high-throughput sequencing to explore geographic patterns and the relative importance of ecological processes in the assembly of abundant and rare bacterial subcommunities from 25 lakes across the middle and lower reaches of Yangtze River basin (MLYB), located in Southeast China, where most of the lakes are interconnected by river networks. We found similar biogeographic patterns of abundant and rare subcommunities which could significantly distinguish the community compositions of the two lake groups that were far from each other but which could not distinguish the community compositions of the nearby lakes. Both abundant and rare bacteria followed a strong distance-decay relationship. These findings suggest that the interconnectivity between lakes homogenizes the bacterial communities in local areas, and the abundant and rare taxa therein may be affected by the same ecological process. In addition, based on the measured environmental variables, the deterministic processes explain a small fraction of variation within both abundant and rare subcommunities, while both neutral and null models revealed a high stochasticity ratio for the spatial distribution patterns of both abundant and rare taxa. These findings indicate that the stochastic processes exhibited a greater influence on both abundant and rare bacterial subcommunity assemblies among interconnected lakes. IMPORTANCE The middle and lower Yangtze Plain is a typical floodplain in which many lakes connect with each other, especially in the wet season. More importantly, with the frequent change of regional water level in the wet season, there is a mutual hydrodynamic exchange among these lakes. The microbial biogeography among these interconnected lakes is still poorly understood. This study aims to unravel the mechanisms underlying the assembly process of abundant and rare bacteria among the interconnected lakes in the middle and lower Yangtze Plain. Our findings will provide a deeper understanding of the biogeographic patterns of rare and abundant bacterial taxa and their determined processes among interconnected aquatic habitats.

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Co-occurrence Network Reveals the Higher Fragmentation of the Bacterial Community in Kaidu River Than Its Tributaries in Northwestern China

Cited by 28 publications

References 92 publications

Contrasting Patterns of the Bacterial Communities in Melting Ponds and Periglacial Rivers of the Zhuxi glacier in the Tibet Plateau

Contrasting Patterns of the Bacterial Communities in Melting Ponds and Periglacial Rivers of the Zhuxi glacier in the Tibet Plateau

Impact of long-term industrial contamination on the bacterial communities in urban river sediments

Geographic Patterns of Bacterioplankton among Lakes of the Middle and Lower Reaches of the Yangtze River Basin, China

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