16s rRNA metagenomic analysis reveals predominance of Crtl and CruF genes in Arabian Sea coast of India

Moopantakath, Jamseel; Imchen, Madangchanok; Siddhardha, Busi; Kumavath, Ranjith

doi:10.1016/j.scitotenv.2020.140699

Cited by 10 publications

(7 citation statements)

References 73 publications

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“…In another study of Moopantakath et al ( 2020 ) reveals that open sea was significantly enriched with Prochlorococcus and Candidatus pelagibacter whereas coastal biosystems were dominated by Marinobacter and Alcanivorax. , Similarly water samples of the AS-OMZ were influenced by the population dynamics of microbes that include nitrate reducers, sulfate and sulfur reducers.…”

Section: Coastal and Marine Ecosystemsmentioning

confidence: 94%

“…Based on functional prediction from this study, most bacterial communities were involved in the biodegradation and bioremediation processes. Moopantakath et al ( 2020 ) studied different ecosystems of Arabian coastal regions by whole-genome approach to elucidate the dominant representative gene, haloarcheal diversity, and the prevalence of carotenoid genes.…”

Section: Coastal and Marine Ecosystemsmentioning

confidence: 99%

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Bacterial diversity in the aquatic system in India based on metagenome analysis—a critical review

Jasna

Nathan

Parvathi

et al. 2023

Environ Sci Pollut Res

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Microbial analysis has become one of the most critical areas in aquatic ecology and a crucial component for assessing the contribution of microbes in food web dynamics and biogeochemical processes. Initial research was focused on estimating the abundance and distribution of the microbes using microscopy and culture-based analysis, which are undoubtedly complex tasks. Over the past few decades, microbiologists have endeavored to apply and extend molecular techniques to address pertinent questions related to the function and metabolism of microbes in aquatic ecology. Metagenomics analysis has revolutionized aquatic ecology studies involving the investigation of the genome of a mixed community of organisms in an ecosystem to identify microorganisms, their functionality, and the discovery of novel proteins. This review discusses the metagenomics analysis of bacterial diversity in and around different aquatic systems in India.

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Section: Coastal and Marine Ecosystemsmentioning

confidence: 94%

Section: Coastal and Marine Ecosystemsmentioning

confidence: 99%

Bacterial diversity in the aquatic system in India based on metagenome analysis—a critical review

Jasna

Nathan

Parvathi

et al. 2023

Environ Sci Pollut Res

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“…In-house R scripts were used to detect the presence or absence of crtI , crtL , cruF , and crtD genes from all CDS profiles. These are key genes involved in the carotenogenesis pathway; thus, crtD codes for carotenoid 3,4-desaturase; crtI codes for lycopene-forming enzyme; crtL encodes lycopene beta cyclase and cruF codes for bisanhydrobacterioruberin hydratase [ 2 ].…”

Section: Methodsmentioning

confidence: 99%

“…More than 750 carotenoids of potential commercial importance have been isolated from microbial sources [ 1 ]. In particular, Haloarchaea is a reservoir of unique carotenoid bacterioruberin [ 2 ]. Carotenoids synthesized by extreme halophiles are of specific interest for their ease in the extraction process, for saline tolerance, and for their biological applications against infectious diseases, repression of tumors or cancer growth, and cancer growth [ 3 , 4 , 5 , 6 ].…”

Section: Introductionmentioning

confidence: 99%

“…On the other hand, coastal biosystems are interconnected with freshwater bodies including rivers that constantly carry foreign solutes and microbes into the marine biosystem that could enrich the diverse microbial community. In our recent study, we detected the predominance of Haloarchaea in the Arabian Sea coastal region, India [ 2 ]. Compared to nearshore water, the open sea is also exposed to higher Ultraviolet (UV) radiation due to more increased transparency because of lower amounts of suspended particles [ 17 ].…”

Section: Introductionmentioning

confidence: 99%

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Ubiquitousness of Haloferax and Carotenoid Producing Genes in Arabian Sea Coastal Biosystems of India

et al. 2021

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This study presents a comparative analysis of halophiles from the global open sea and coastal biosystems through shotgun metagenomes (n = 209) retrieved from public repositories. The open sea was significantly enriched with Prochlorococcus and Candidatus pelagibacter. Meanwhile, coastal biosystems were dominated by Marinobacter and Alcanivorax. Halophilic archaea Haloarcula and Haloquandratum, predominant in the coastal biosystem, were significantly (p < 0.05) enriched in coastal biosystems compared to the open sea. Analysis of whole genomes (n = 23,540), retrieved from EzBioCloud, detected crtI in 64.66% of genomes, while cruF was observed in 1.69% Bacteria and 40.75% Archaea. We further confirmed the viability and carotenoid pigment production by pure culture isolation (n = 1351) of extreme halophiles from sediments (n = 410 × 3) sampling at the Arabian coastline of India. All red-pigmented isolates were represented exclusively by Haloferax, resistant to saturated NaCl (6 M), and had >60% G + C content. Multidrug resistance to tetracycline, gentamicin, ampicillin, and chloramphenicol were also observed. Our study showed that coastal biosystems could be more suited for bioprospection of halophiles rather than the open sea.

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Diversity pattern of marine culturable heterotrophic bacteria in a region with coexisting upwelling and mud banks in the southeastern Arabian Sea

Jasna

Parvathi

Nathan

2021

Environ Sci Pollut Res

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16s rRNA metagenomic analysis reveals predominance of Crtl and CruF genes in Arabian Sea coast of India

Cited by 10 publications

References 73 publications

Bacterial diversity in the aquatic system in India based on metagenome analysis—a critical review

Bacterial diversity in the aquatic system in India based on metagenome analysis—a critical review

Ubiquitousness of Haloferax and Carotenoid Producing Genes in Arabian Sea Coastal Biosystems of India

Diversity pattern of marine culturable heterotrophic bacteria in a region with coexisting upwelling and mud banks in the southeastern Arabian Sea

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