Draft Genome Sequence of Halotolerant Bacterium Chromohalobacter salexigens ANJ207, Isolated from Salt Crystal Deposits in Pipelines

Srivastava, Alok Kumar; Sharma, Anjney; Srivastava, R. P.; Tiwari, Praveen Kumar; Singh, Alok; Yadav, Jagriti; Jamali, Hena; Bharati, Akhilendra Pratap; Srivastava, Anchal; Kashyap, Prem Lal; Chakdar, Hillol; Kumar, Murugan; Saxena, Anil Kumar

doi:10.1128/mra.00049-19

Cited by 11 publications

(9 citation statements)

References 13 publications

(13 reference statements)

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“…The bacterial genus Exiguobacterium contains several versatile species isolated from variable extreme environments (Collins et al ., 1983;Vishnivetskaya et al ., 2009; Vishnivetskaya et al ., 2014). Their ability to grow over a wide range of temperatures (−12 to 55°C) and salinity makes them a suitable candidate for developing agriculturally, industrially and environmentally relevant products (Patel et al ., 2018; Srivastava et al ., 2019a,b). Keeping in view of its unique nature and growth over a wide range of environmental conditions and agriculture relevance, we performed the whole genome sequencing of E .…”

Section: Discussionmentioning

confidence: 99%

Pan‐genome analysis of Exiguobacterium reveals species delineation and genomic similarity with Exiguobacterium profundum PHM 11

Srivastava

Sharma

et al. 2020

Environ Microbiol Rep

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The stint of the bacterial species is convoluting, but the new algorithms to calculate genome-to-genome distance (GGD) and DNA-DNA hybridization (DDH) for comparative genome analysis have rejuvenated the exploration of species and sub-species characterization. The present study reports the first whole genome sequence of Exiguobacterium profundum PHM11. PHM11 genome consist of~2.92 Mb comprising 48 contigs, 47.93% G + C content. Functional annotations revealed a total of 3033 protein coding genes and 33 non-protein coding genes. Out of these, only 2316 could be characterized and others reported as hypothetical proteins. The comparative analysis of predicted proteome of PHM11 with five other Exiguobacterium sp. identified 3806 clusters, out of which the PHM11 shared a total of 2723 clusters having 1664 common clusters, 131 singletons and 928 distributed between five species. The pan-genome analysis of 70 different genomic sequences of Exigubacterium strains devoid of a species taxon was done on the basis of GGD and the DDH which identified eight genomes analogous to the PHM11 at species level and may be characterized as E. profundum. The ANI value and phylogenetic tree analysis also support the same. The results regarding pan-genome analysis provide a convincing insight for delineation of these eight strains to species.

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Section: Discussionmentioning

confidence: 99%

Pan‐genome analysis of Exiguobacterium reveals species delineation and genomic similarity with Exiguobacterium profundum PHM 11

Srivastava

Sharma

et al. 2020

Environ Microbiol Rep

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“…The countries where salt-affected soils exist at a large scale include, but are not restricted to, Australia, Bangladesh, China, Egypt, India, Iran, Iraq, Mexico, Pakistan, Syria, Turkey, the former USSR, and the United States ( Chhabra, 2022 ). In India, most states like Gujarat, Uttar Pradesh, Maharashtra, West Bengal, and Rajasthan are struggling with the same issue ( Sharma and Singh, 2017 ; Srivastava et al, 2019a , b ). This affects most of the stages of crop development and production such as germination, plant growth, flowering, fruiting, seed setting, and yield ( Kashyap et al, 2020 ).…”

Section: Introductionmentioning

confidence: 99%

“…Chromohalobacter salexigens is a halophilic γ-proteobacterium that grows optimally in high salt concentrations ( Arahal et al, 2001 ; Srivastava et al, 2019a ). Being a highly salt-tolerant microorganism, several groups have used this as a model organism to study osmoadaptation in prokaryotes ( Vargas et al, 2008 ).…”

Section: Introductionmentioning

confidence: 99%

Transcriptome Analysis to Understand Salt Stress Regulation Mechanism of Chromohalobacter salexigens ANJ207

Srivastava

Sharma

et al. 2022

Front. Microbiol.

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Soil salinity is one of the major global issues affecting soil quality and agricultural productivity. The plant growth-promoting halophilic bacteria that can thrive in regions of high salt (NaCl) concentration have the ability to promote the growth of plants in salty environments. In this study, attempts have been made to understand the salinity adaptation of plant growth-promoting moderately halophilic bacteria Chromohalobacter salexigens ANJ207 at the genetic level through transcriptome analysis. In order to identify the stress-responsive genes, the transcriptome sequencing of C. salexigens ANJ207 under different salt concentrations was carried out. Among the 8,936 transcripts obtained, 93 were upregulated while 1,149 were downregulated when the NaCl concentration was increased from 5 to 10%. At 10% NaCl concentration, genes coding for lactate dehydrogenase, catalase, and OsmC-like protein were upregulated. On the other hand, when salinity was increased from 10 to 25%, 1,954 genes were upregulated, while 1,287 were downregulated. At 25% NaCl, genes coding for PNPase, potassium transporter, aconitase, excinuclease subunit ABC, and transposase were found to be upregulated. The quantitative real-time PCR analysis showed an increase in the transcript of genes related to the biosynthesis of glycine betaine coline genes (gbcA, gbcB, and L-pro) and in the transcript of genes related to the uptake of glycine betaine (OpuAC, OpuAA, and OpuAB). The transcription of the genes involved in the biosynthesis of L-hydroxyproline (proD and proS) and one stress response proteolysis gene for periplasmic membrane stress sensing (serP) were also found to be increased. The presence of genes for various compatible solutes and their increase in expression at the high salt concentration indicated that a coordinated contribution by various compatible solutes might be responsible for salinity adaptation in ANJ207. The investigation provides new insights into the functional roles of various genes involved in salt stress tolerance and oxidative stress tolerance produced by high salt concentration in ANJ207 and further support the notion regarding the utilization of bacterium and their gene(s) in ameliorating salinity problem in agriculture.

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“…1; Table 2). RAST is a fully automated web-based tool and has been extensively employed in genome sequence annotation of several microbes including P.koreensis and P. moraviensis (Lin et al 2016;Lujan et al 2017;Srivastava et al 2019). The intra-species sequence similarity was checked by calculating ANI value using reference of P. koreensis, P. agarici, P. moraviensis, and P. rhizosphaerae (Table 3).…”

Section: Resultsmentioning

confidence: 99%

Draft genome sequence of a cold-adapted phosphorous-solubilizing Pseudomonas koreensis P2 isolated from Sela Lake, India

et al. 2019

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The draft genome sequence of a cold-adapted phosphorus-solubilizing strain Pseudomonas koreensis P2 isolated from the Sela Lake contains 6,436,246 bp with G + C content of 59.8%. The genome sequence includes 5743 protein coding genes, 68 non-protein coding genes, 1007 putative proteins, 5 rRNA genes, 64 tRNAs and two prophage regions in 40 contigs. Besides these, genes involved in phosphate solubilization, siderophore production, iron uptake, heat shock and cold shock tolerance, multidrug resistance and glycine-betaine production were also identified.

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Draft Genome Sequence of Halotolerant Bacterium Chromohalobacter salexigens ANJ207, Isolated from Salt Crystal Deposits in Pipelines

Abstract: Chromohalobacter salexigens ANJ207 was isolated from a salt crystal and is known to tolerate up to 30% NaCl concentration. Here, we report the de novo draft assembly of C. salexigens ANJ207.

Cited by 11 publications

References 13 publications

Pan‐genome analysis of Exiguobacterium reveals species delineation and genomic similarity with Exiguobacterium profundum PHM 11

Pan‐genome analysis of Exiguobacterium reveals species delineation and genomic similarity with Exiguobacterium profundum PHM 11

Transcriptome Analysis to Understand Salt Stress Regulation Mechanism of Chromohalobacter salexigens ANJ207

Draft genome sequence of a cold-adapted phosphorous-solubilizing Pseudomonas koreensis P2 isolated from Sela Lake, India

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