Genomic profiling and characteristics of a C1 degrading heterotrophic fresh-water bacterium Paracoccus sp. strain DMF
Paracoccus species are metabolically versatile gram-negative, aerobic facultative methylotrophic bacteria showing enormous promise for environmental and bioremediation studies. Here we report, the complete genome analysis of Paracoccus sp . strain DMF ( P. DMF) that was isolated from a domestic wast...
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| Veröffentlicht in: | Archives of microbiology 2024-01, Vol.206 (1), p.6-6, Article 6 |
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| creator | Maurya, Shiwangi Arya, Chetan Kumar Parmar, Nidhi Sathyanarayanan, Nitish Joshi, Chaitanya G. Ramanathan, Gurunath |
| description | Paracoccus
species are metabolically versatile gram-negative, aerobic facultative methylotrophic bacteria showing enormous promise for environmental and bioremediation studies. Here we report, the complete genome analysis of
Paracoccus sp
. strain DMF (
P.
DMF) that was isolated from a domestic wastewater treatment plant in Kanpur, India (26.4287 °N, 80.3891 °E) based on its ability to degrade a recalcitrant organic solvent
N, N
-dimethylformamide (DMF). The results reveal a genome size of 4,202,269 base pairs (bp) with a G + C content of 67.9%. The assembled genome comprises 4141 coding sequences (CDS), 46 RNA sequences, and 2 CRISPRs. Interestingly, catabolic operons related to the conventional marine-based methylated amines (MAs) degradation pathway were functionally annotated within the genome of an obligated aerobic heterotroph that is
P
. DMF. The genomic data-based characterization presented here for the novel heterotroph
P.
DMF aims to improve the understanding of the phenotypic gene products, enzymes, and pathways involved with greater emphasis on facultative methylotrophic motility-based latent pathogenicity. |
| doi_str_mv | 10.1007/s00203-023-03729-z |
| format | Article |
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species are metabolically versatile gram-negative, aerobic facultative methylotrophic bacteria showing enormous promise for environmental and bioremediation studies. Here we report, the complete genome analysis of
Paracoccus sp
. strain DMF (
P.
DMF) that was isolated from a domestic wastewater treatment plant in Kanpur, India (26.4287 °N, 80.3891 °E) based on its ability to degrade a recalcitrant organic solvent
N, N
-dimethylformamide (DMF). The results reveal a genome size of 4,202,269 base pairs (bp) with a G + C content of 67.9%. The assembled genome comprises 4141 coding sequences (CDS), 46 RNA sequences, and 2 CRISPRs. Interestingly, catabolic operons related to the conventional marine-based methylated amines (MAs) degradation pathway were functionally annotated within the genome of an obligated aerobic heterotroph that is
P
. DMF. The genomic data-based characterization presented here for the novel heterotroph
P.
DMF aims to improve the understanding of the phenotypic gene products, enzymes, and pathways involved with greater emphasis on facultative methylotrophic motility-based latent pathogenicity.</description><identifier>ISSN: 0302-8933</identifier><identifier>EISSN: 1432-072X</identifier><identifier>DOI: 10.1007/s00203-023-03729-z</identifier><identifier>PMID: 38015256</identifier><language>eng</language><publisher>Berlin/Heidelberg: Springer Berlin Heidelberg</publisher><subject>Amines ; Bacteria ; Biochemistry ; Biomedical and Life Sciences ; Bioremediation ; Biotechnology ; Cell Biology ; Degradation ; Dimethylformamide ; Domestic wastewater ; Ecology ; freshwater ; Gene sequencing ; Genomes ; Genomics ; Gram-negative bacteria ; heterotrophs ; India ; Life Sciences ; methylation ; Methylotrophic bacteria ; Microbial Ecology ; Microbiology ; operon ; Operons ; Original Paper ; Paracoccus ; Paracoccus - genetics ; Pathogenicity ; Pathogens ; phenotype ; RNA ; sequence analysis ; sewage treatment ; solvents ; species ; Wastewater treatment ; Wastewater treatment plants ; Water</subject><ispartof>Archives of microbiology, 2024-01, Vol.206 (1), p.6-6, Article 6</ispartof><rights>The Author(s), under exclusive licence to Springer-Verlag GmbH Germany, part of Springer Nature 2023. Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.</rights><rights>2023. The Author(s), under exclusive licence to Springer-Verlag GmbH Germany, part of Springer Nature.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><cites>FETCH-LOGICAL-c359t-bb3cc5c0971e9be80334dd88501cea5a3e90a884079118452cd296bdf04d13bc3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s00203-023-03729-z$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s00203-023-03729-z$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,776,780,27901,27902,41464,42533,51294</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/38015256$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Maurya, Shiwangi</creatorcontrib><creatorcontrib>Arya, Chetan Kumar</creatorcontrib><creatorcontrib>Parmar, Nidhi</creatorcontrib><creatorcontrib>Sathyanarayanan, Nitish</creatorcontrib><creatorcontrib>Joshi, Chaitanya G.</creatorcontrib><creatorcontrib>Ramanathan, Gurunath</creatorcontrib><title>Genomic profiling and characteristics of a C1 degrading heterotrophic fresh-water bacterium Paracoccus sp. strain DMF</title><title>Archives of microbiology</title><addtitle>Arch Microbiol</addtitle><addtitle>Arch Microbiol</addtitle><description>Paracoccus
species are metabolically versatile gram-negative, aerobic facultative methylotrophic bacteria showing enormous promise for environmental and bioremediation studies. Here we report, the complete genome analysis of
Paracoccus sp
. strain DMF (
P.
DMF) that was isolated from a domestic wastewater treatment plant in Kanpur, India (26.4287 °N, 80.3891 °E) based on its ability to degrade a recalcitrant organic solvent
N, N
-dimethylformamide (DMF). The results reveal a genome size of 4,202,269 base pairs (bp) with a G + C content of 67.9%. The assembled genome comprises 4141 coding sequences (CDS), 46 RNA sequences, and 2 CRISPRs. Interestingly, catabolic operons related to the conventional marine-based methylated amines (MAs) degradation pathway were functionally annotated within the genome of an obligated aerobic heterotroph that is
P
. DMF. The genomic data-based characterization presented here for the novel heterotroph
P.
DMF aims to improve the understanding of the phenotypic gene products, enzymes, and pathways involved with greater emphasis on facultative methylotrophic motility-based latent pathogenicity.</description><subject>Amines</subject><subject>Bacteria</subject><subject>Biochemistry</subject><subject>Biomedical and Life Sciences</subject><subject>Bioremediation</subject><subject>Biotechnology</subject><subject>Cell Biology</subject><subject>Degradation</subject><subject>Dimethylformamide</subject><subject>Domestic wastewater</subject><subject>Ecology</subject><subject>freshwater</subject><subject>Gene sequencing</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Gram-negative bacteria</subject><subject>heterotrophs</subject><subject>India</subject><subject>Life Sciences</subject><subject>methylation</subject><subject>Methylotrophic bacteria</subject><subject>Microbial Ecology</subject><subject>Microbiology</subject><subject>operon</subject><subject>Operons</subject><subject>Original Paper</subject><subject>Paracoccus</subject><subject>Paracoccus - genetics</subject><subject>Pathogenicity</subject><subject>Pathogens</subject><subject>phenotype</subject><subject>RNA</subject><subject>sequence analysis</subject><subject>sewage treatment</subject><subject>solvents</subject><subject>species</subject><subject>Wastewater treatment</subject><subject>Wastewater treatment plants</subject><subject>Water</subject><issn>0302-8933</issn><issn>1432-072X</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2024</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><recordid>eNqFkUFLHDEYhkOx6Gr9Az2UgJdexn7JN9lJjrJWW1D00EJvIZNkdkd2Jmsyg7i_3qxjW_CghxDI97xv-HgI-czglAFU3xIAByyA54MVV8X2A5mxEnkBFf-zR2aAwAupEA_IYUp3AIxLKffJAUpggov5jIyXvg9da-kmhqZdt_2Smt5RuzLR2MHHNg2tTTQ01NAFo84vo3E7auXzNAwxbFY53USfVsWDyW-0noJjR293JcHaMdG0OaVpiKbt6fn1xSfysTHr5I9f7iPy--L7r8WP4urm8ufi7KqwKNRQ1DVaKyyoinlVewmIpXNSCmDWG2HQKzBSllApxmQpuHVczWvXQOkY1haPyNepN293P_o06K5N1q_XpvdhTBqZQDFXJap3US5VWXHOyh168gq9C2Ps8yLPlKhACZYpPlE2hpSib_Qmtp2Jj5qB3vnTkz-d_elnf3qbQ19eqse68-5f5K-wDOAEpDzqlz7-__uN2id5rqYV</recordid><startdate>20240101</startdate><enddate>20240101</enddate><creator>Maurya, Shiwangi</creator><creator>Arya, Chetan Kumar</creator><creator>Parmar, Nidhi</creator><creator>Sathyanarayanan, Nitish</creator><creator>Joshi, Chaitanya G.</creator><creator>Ramanathan, Gurunath</creator><general>Springer Berlin Heidelberg</general><general>Springer Nature B.V</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7QL</scope><scope>7U9</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>RC3</scope><scope>7X8</scope><scope>7S9</scope><scope>L.6</scope></search><sort><creationdate>20240101</creationdate><title>Genomic profiling and characteristics of a C1 degrading heterotrophic fresh-water bacterium Paracoccus sp. strain DMF</title><author>Maurya, Shiwangi ; Arya, Chetan Kumar ; Parmar, Nidhi ; Sathyanarayanan, Nitish ; Joshi, Chaitanya G. ; Ramanathan, Gurunath</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c359t-bb3cc5c0971e9be80334dd88501cea5a3e90a884079118452cd296bdf04d13bc3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2024</creationdate><topic>Amines</topic><topic>Bacteria</topic><topic>Biochemistry</topic><topic>Biomedical and Life Sciences</topic><topic>Bioremediation</topic><topic>Biotechnology</topic><topic>Cell Biology</topic><topic>Degradation</topic><topic>Dimethylformamide</topic><topic>Domestic wastewater</topic><topic>Ecology</topic><topic>freshwater</topic><topic>Gene sequencing</topic><topic>Genomes</topic><topic>Genomics</topic><topic>Gram-negative bacteria</topic><topic>heterotrophs</topic><topic>India</topic><topic>Life Sciences</topic><topic>methylation</topic><topic>Methylotrophic bacteria</topic><topic>Microbial Ecology</topic><topic>Microbiology</topic><topic>operon</topic><topic>Operons</topic><topic>Original Paper</topic><topic>Paracoccus</topic><topic>Paracoccus - genetics</topic><topic>Pathogenicity</topic><topic>Pathogens</topic><topic>phenotype</topic><topic>RNA</topic><topic>sequence analysis</topic><topic>sewage treatment</topic><topic>solvents</topic><topic>species</topic><topic>Wastewater treatment</topic><topic>Wastewater treatment plants</topic><topic>Water</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Maurya, Shiwangi</creatorcontrib><creatorcontrib>Arya, Chetan Kumar</creatorcontrib><creatorcontrib>Parmar, Nidhi</creatorcontrib><creatorcontrib>Sathyanarayanan, Nitish</creatorcontrib><creatorcontrib>Joshi, Chaitanya G.</creatorcontrib><creatorcontrib>Ramanathan, Gurunath</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Virology and AIDS Abstracts</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</collection><collection>Medical Database (Alumni Edition)</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biological Science Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>AGRICOLA</collection><collection>AGRICOLA - Academic</collection><jtitle>Archives of microbiology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Maurya, Shiwangi</au><au>Arya, Chetan Kumar</au><au>Parmar, Nidhi</au><au>Sathyanarayanan, Nitish</au><au>Joshi, Chaitanya G.</au><au>Ramanathan, Gurunath</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genomic profiling and characteristics of a C1 degrading heterotrophic fresh-water bacterium Paracoccus sp. strain DMF</atitle><jtitle>Archives of microbiology</jtitle><stitle>Arch Microbiol</stitle><addtitle>Arch Microbiol</addtitle><date>2024-01-01</date><risdate>2024</risdate><volume>206</volume><issue>1</issue><spage>6</spage><epage>6</epage><pages>6-6</pages><artnum>6</artnum><issn>0302-8933</issn><eissn>1432-072X</eissn><abstract>Paracoccus
species are metabolically versatile gram-negative, aerobic facultative methylotrophic bacteria showing enormous promise for environmental and bioremediation studies. Here we report, the complete genome analysis of
Paracoccus sp
. strain DMF (
P.
DMF) that was isolated from a domestic wastewater treatment plant in Kanpur, India (26.4287 °N, 80.3891 °E) based on its ability to degrade a recalcitrant organic solvent
N, N
-dimethylformamide (DMF). The results reveal a genome size of 4,202,269 base pairs (bp) with a G + C content of 67.9%. The assembled genome comprises 4141 coding sequences (CDS), 46 RNA sequences, and 2 CRISPRs. Interestingly, catabolic operons related to the conventional marine-based methylated amines (MAs) degradation pathway were functionally annotated within the genome of an obligated aerobic heterotroph that is
P
. DMF. The genomic data-based characterization presented here for the novel heterotroph
P.
DMF aims to improve the understanding of the phenotypic gene products, enzymes, and pathways involved with greater emphasis on facultative methylotrophic motility-based latent pathogenicity.</abstract><cop>Berlin/Heidelberg</cop><pub>Springer Berlin Heidelberg</pub><pmid>38015256</pmid><doi>10.1007/s00203-023-03729-z</doi><tpages>1</tpages></addata></record> |
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| ispartof | Archives of microbiology, 2024-01, Vol.206 (1), p.6-6, Article 6 |
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| subjects | Amines Bacteria Biochemistry Biomedical and Life Sciences Bioremediation Biotechnology Cell Biology Degradation Dimethylformamide Domestic wastewater Ecology freshwater Gene sequencing Genomes Genomics Gram-negative bacteria heterotrophs India Life Sciences methylation Methylotrophic bacteria Microbial Ecology Microbiology operon Operons Original Paper Paracoccus Paracoccus - genetics Pathogenicity Pathogens phenotype RNA sequence analysis sewage treatment solvents species Wastewater treatment Wastewater treatment plants Water |
| title | Genomic profiling and characteristics of a C1 degrading heterotrophic fresh-water bacterium Paracoccus sp. strain DMF |
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