Response of microbial community structure to seasonal fluctuation on soils of Rann of Kachchh, Gujarat, India: Representing microbial dynamics and functional potential

Narayan, Avinash; Patel, Viraat; Singh, Prachi; Patel, A. B.; Jain, Kunal; Karthikeyan, K.; Shah, Amita; Madamwar, Datta

doi:10.1016/j.egg.2017.11.001

Cited by 11 publications

(8 citation statements)

References 61 publications

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“…The most abundant genera within these phyla consisted of known halophiles. Natronomonas was among the most abundant euryarchaeal genera represented in these soils, in agreement with previous reports of the archaeal communities from other studied saline soils 10,14,15 . We noted the absence of reads affiliated to the genus Haloquadratum , which constitutes more than 75% of the community in the highest salinity saltern ponds from Bras del Port saltern (Santa Pola, Alicante, Spain), one of the best studied hypersaline ecosystems 30 .…”

Section: Discussionsupporting

confidence: 92%

“…However, this genus also seems to be missing from the microbiota of other saline soils 9,10,12 , and was not detected in previous metagenomic studies from saline soils from this same area 17 . Thus far, only two studies have retrieved sequences related to this genus, albeit in low abundance, in saline soil samples from the desert Rann Kutch 14,15 (Gujarat, India). On the other hand, the genus Salinibacter , which is commonly found in hypersaline waters 38 , shares habitat with Haloquadratum in crystallizer ponds 39 , and has also been reported in saline soils before 14,15 , was the most abundant bacterial genus overall, followed by Salinimicrobium .…”

Section: Discussionmentioning

confidence: 99%

“…Thus far, only two studies have retrieved sequences related to this genus, albeit in low abundance, in saline soil samples from the desert Rann Kutch 14,15 (Gujarat, India). On the other hand, the genus Salinibacter , which is commonly found in hypersaline waters 38 , shares habitat with Haloquadratum in crystallizer ponds 39 , and has also been reported in saline soils before 14,15 , was the most abundant bacterial genus overall, followed by Salinimicrobium . One environmental genome related to the latter genus was extracted from metagenomes of samples collected in the same area 17 , which suggests that organisms affiliated to Salinimicrobium may be relatively abundant in these soils over time.…”

Section: Discussionmentioning

confidence: 99%

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Spatial distribution of prokaryotic communities in hypersaline soils

Vera-Gargallo

Chowdhury

Brown

et al. 2019

Sci Rep

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Increasing salinization in wetland systems is a major threat to ecosystem services carried out by microbial communities. Thus, it is paramount to understand how salinity drives both microbial community structures and their diversity. Here we evaluated the structure and diversity of the prokaryotic communities from a range of highly saline soils (EC1:5 from 5.96 to 61.02 dS/m) from the Odiel Saltmarshes and determined their association with salinity and other soil physicochemical features by analyzing 16S rRNA gene amplicon data through minimum entropy decomposition (MED). We found that these soils harbored unique communities mainly composed of halophilic and halotolerant taxa from the phyla Euryarchaeota, Proteobacteria, Balneolaeota, Bacteroidetes and Rhodothermaeota. In the studied soils, several site-specific properties were correlated with community structure and individual abundances of particular sequence variants. Salinity had a secondary role in shaping prokaryotic communities in these highly saline samples since the dominant organisms residing in them were already well-adapted to a wide range of salinities. We also compared ESV-based results with OTU-clustering derived ones, showing that, in this dataset, no major differences in ecological outcomes were obtained by the employment of one or the other method.

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Section: Discussionsupporting

confidence: 92%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

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Spatial distribution of prokaryotic communities in hypersaline soils

Vera-Gargallo

Chowdhury

Brown

et al. 2019

Sci Rep

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“…However, our analyses, including samples in the water column and sediments showed that this environment holds a very variable microbial community (See Figs 3 and 4). The high dynamism that exists in this extreme environment, where the community fluctuates according to minor changes in the water conditions and external factors, such as the climate (Ferris and Ward 1997; Fraterrigo et al 2006; Li et al 2014; Narayan et al 2018) is also a factor to consider when comparing results. Interestingly, the absence of iron-oxidizing bacteria (see below) can be related to the neutral pH which favors its abiotic oxidation, thus reducing the availability of electron donors for this type of bacteria (Earhart 2009; Johnson et al 2012).…”

Section: Resultsmentioning

confidence: 99%

Rapid shift in microbial community structure in a neutral hydrothermal hot spring from Costa Rica

Rojas‐Gätjens¹,

Arce-Rodríguez

Puente-Sánchez

et al. 2020

Preprint

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In this work, we characterize the geochemistry and microbial community of Bajo las Peñas, a neutral (pH 6.5-7.4), hot spring (T = 62.0-68.0°C) located near Turrialba Volcano, Costa Rica. The microbiota at its two sources belongs mainly to the family Aquificae, comprising OTUs closely related to the genera Sulfurihydrogenibium, Thermosulfidibacter, Thermodesulfovibrio and Thermocrinis which is consistent with the presence of moderate levels of sulfate (243-284 mg/L) along the stream. We determined a dramatic shift in the microbial community just a few meters downstream of the sources of the hot spring (15-20 meters), with a change from sulfur related chemoautotrophic (e.g. Sulfurihydrogenibium and an OTU closely related to Thermodesulfovibrio) to chemoheterotrophic prokaryotes (e.g. Meiothermus, Nitrososphaera, Thermoflexus, Thermus). Thus, in this neutral hot spring, the first level of the trophic chain is associated with photosynthesis as well other anaerobic CO2 fixing bacteria. Then, thermotolerant chemoheterotrophic bacteria colonize the environment to degrade organic matter and use fermentative products from the first level of the trophic chain. Our data demonstrate how quickly the microbial community of an ecosystem can change in response to environmental variables and sheds light on the microbial ecology of less common circumneutral pH hot springs.

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“…However, cycles of flood and evaporation due to rain and high temperature, respectively, make this desert significant for biodiversity due to unique flora and fauna (Fund 2014). Different salinities ranging from 8 to 13% were observed at RoK in various seasons (Narayan et al 2018). Since cyanobacteria are having the inherent capacity to survive in different extreme habitats with hypersaline, high temperatures and intense solar radiations; we intended to explore the cyanobacterial mat from such an assorted ecosystem of RoK.…”

Section: Introductionmentioning

confidence: 99%

Cyanobacterial diversity in mat sample obtained from hypersaline desert, Rann of Kachchh

et al. 2019

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Rann of Kachchh (RoK) is a unique geoformation, which is exposed to dynamic environmental changes such as salinity, temperature, and nutrients throughout the year. In this study, the pooled mat sample was examined for the cyanobacterial community structure using culture-dependent and culture-independent approaches. Taxonomic profiling was studied using amplicon sequencing that revealed the enrichment of Pseudanabaenales and Oscillatoriales by QIIME and MG-RAST, respectively. Other abundant orders were represented by Chroococcales, Nostocales, and unclassified cyanobacteria by both approaches. Nine cyanobacterial cultures were isolated from mat samples showing 90-98% similarities with available sequences in GenBank. The culture-dependent study suggested that mat was dominated by cyanobacterial orders such as Oscillatoriales-filamentous and Chroococcales-unicellular. Our results from the culture-dependent approach also indicated that despite high similarities in gene sequences, six cyanobacteria fall into the separate clade in the phylogenetic analysis that could be signs of evolution due to an extreme environment. Cultured isolates are correlated well with abundant taxa from amplicon sequencing. Further, protein profiling was done specifically for phycobiliproteins which will be helpful to elucidate their roles in light harvesting and energy transfer mechanism in the unique environment of RoK.

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Response of microbial community structure to seasonal fluctuation on soils of Rann of Kachchh, Gujarat, India: Representing microbial dynamics and functional potential

Cited by 11 publications

References 61 publications

Spatial distribution of prokaryotic communities in hypersaline soils

Spatial distribution of prokaryotic communities in hypersaline soils

Rapid shift in microbial community structure in a neutral hydrothermal hot spring from Costa Rica

Cyanobacterial diversity in mat sample obtained from hypersaline desert, Rann of Kachchh

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