Comparative genomics of Sporothrix species and identification of putative pathogenic-gene determinants
To understand the phylogenomics, pathogenic/virulence-associated genes and genomic evolution of pathogenic species. We performed comparative genome analysis of species using tools and in-house scripts. We predicted genes and repeats, compared genomes based on synteny, identified orthologous clusters...
Gespeichert in:
| Veröffentlicht in: | Future microbiology 2020-10, Vol.15 (15), p.1465-1481 |
|---|---|
| Hauptverfasser: | , , , , , , |
| Format: | Artikel |
| Sprache: | eng |
| Schlagworte: | |
| Online-Zugang: | Volltext |
| Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
| container_end_page | 1481 |
|---|---|
| container_issue | 15 |
| container_start_page | 1465 |
| container_title | Future microbiology |
| container_volume | 15 |
| creator | Prakash, Hariprasath Karuppiah, Ponmurugan A Al-Dhabi, Naif Prasad, Gandham S Badapanda, Chandan Chakrabarti, Arunaloke Rudramurthy, Shivaprakash M |
| description | To understand the phylogenomics, pathogenic/virulence-associated genes and genomic evolution of pathogenic
species.
We performed
comparative genome analysis of
species using
tools and in-house scripts. We predicted genes and repeats, compared genomes based on synteny, identified orthologous clusters, assessed genes family expansion/contraction, predicted secretory proteins and finally searched for similar sequences from various databases.
The phylogenomics revealed that
species are closely related to
species. The gene family evolutionary analysis revealed the expansion of genes related to virulence (CFEM domain, iron acquisition genes, lysin motif domain), stress response (Su[var]3-9, Enhancer-of-zeste and Trithorax domain and Domain of unknown function 1996), proteases (aspartic protease, x-pro dipeptidyl-peptidase), cell wall composition associated genes (chitin deacetylase, chitinase) and transporters (major facilitator superfamily transporter, oligo-peptide transporter family) in
species.
The present study documents the putative pathogenic/virulence-associated genes in the
species. |
| doi_str_mv | 10.2217/fmb-2019-0302 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_proquest_miscellaneous_2460084206</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>2460987819</sourcerecordid><originalsourceid>FETCH-LOGICAL-c321t-b33f819fa1886cf2efae694978bdf1b7fd4851f4f8c7dc3319c657a2e10b73b63</originalsourceid><addsrcrecordid>eNpdkb1PwzAQxS0EoqUwsqJILCwBf6SxM6KKL6kSAzBHjnOmrho72A6C_x6Hlg4sdzf87undPYTOCb6mlPAb3TU5xaTKMcP0AE0JL8ocV5Qc7mfCJugkhDXGc0EqcowmjBFezamYIr1wXS-9jOYTsnewrjMqZE5nL73zLq68-cpCD8pAyKRtM9OCjUYblTacHcF-iNvtXsaVSxJG5alC1kIE3xkrbQyn6EjLTYCzXZ-ht_u718Vjvnx-eFrcLnPFKIl5w5hOFrUkQpRKU9ASyqqouGhaTRqu20LMiS60ULxV6YpKlXMuKRDccNaUbIautrq9dx8DhFh3JijYbKQFN4SaFiXGoqB4RC__oWs3eJvc_VKV4MlJovItpbwLwYOue2866b9rgusxgDoFUI8B1GMAib_YqQ5NB-2e_vs4-wGPuYK4</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2460987819</pqid></control><display><type>article</type><title>Comparative genomics of Sporothrix species and identification of putative pathogenic-gene determinants</title><source>PubMed Central</source><creator>Prakash, Hariprasath ; Karuppiah, Ponmurugan ; A Al-Dhabi, Naif ; Prasad, Gandham S ; Badapanda, Chandan ; Chakrabarti, Arunaloke ; Rudramurthy, Shivaprakash M</creator><creatorcontrib>Prakash, Hariprasath ; Karuppiah, Ponmurugan ; A Al-Dhabi, Naif ; Prasad, Gandham S ; Badapanda, Chandan ; Chakrabarti, Arunaloke ; Rudramurthy, Shivaprakash M</creatorcontrib><description>To understand the phylogenomics, pathogenic/virulence-associated genes and genomic evolution of pathogenic
species.
We performed
comparative genome analysis of
species using
tools and in-house scripts. We predicted genes and repeats, compared genomes based on synteny, identified orthologous clusters, assessed genes family expansion/contraction, predicted secretory proteins and finally searched for similar sequences from various databases.
The phylogenomics revealed that
species are closely related to
species. The gene family evolutionary analysis revealed the expansion of genes related to virulence (CFEM domain, iron acquisition genes, lysin motif domain), stress response (Su[var]3-9, Enhancer-of-zeste and Trithorax domain and Domain of unknown function 1996), proteases (aspartic protease, x-pro dipeptidyl-peptidase), cell wall composition associated genes (chitin deacetylase, chitinase) and transporters (major facilitator superfamily transporter, oligo-peptide transporter family) in
species.
The present study documents the putative pathogenic/virulence-associated genes in the
species.</description><identifier>ISSN: 1746-0913</identifier><identifier>EISSN: 1746-0921</identifier><identifier>DOI: 10.2217/fmb-2019-0302</identifier><identifier>PMID: 33179528</identifier><language>eng</language><publisher>England: Future Medicine Ltd</publisher><subject>Algorithms ; Annotations ; Aspartic endopeptidase ; Cell walls ; Chitin ; Chitin deacetylase ; Chitinase ; Contraction ; Enzymes ; Evolutionary genetics ; Fungi ; Genes ; Genomes ; Genomics ; Infections ; Pathogens ; Peptidase ; Peptide transporter ; Phylogenetics ; Proteins ; Species ; Sporothrix ; Synteny ; Trees ; Virulence ; X-Pro dipeptidyl-peptidase</subject><ispartof>Future microbiology, 2020-10, Vol.15 (15), p.1465-1481</ispartof><rights>Copyright Future Medicine Ltd Oct 2020</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c321t-b33f819fa1886cf2efae694978bdf1b7fd4851f4f8c7dc3319c657a2e10b73b63</citedby><cites>FETCH-LOGICAL-c321t-b33f819fa1886cf2efae694978bdf1b7fd4851f4f8c7dc3319c657a2e10b73b63</cites><orcidid>0000-0002-9097-9253 ; 0000-0003-1555-3807</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,777,781,27905,27906</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/33179528$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Prakash, Hariprasath</creatorcontrib><creatorcontrib>Karuppiah, Ponmurugan</creatorcontrib><creatorcontrib>A Al-Dhabi, Naif</creatorcontrib><creatorcontrib>Prasad, Gandham S</creatorcontrib><creatorcontrib>Badapanda, Chandan</creatorcontrib><creatorcontrib>Chakrabarti, Arunaloke</creatorcontrib><creatorcontrib>Rudramurthy, Shivaprakash M</creatorcontrib><title>Comparative genomics of Sporothrix species and identification of putative pathogenic-gene determinants</title><title>Future microbiology</title><addtitle>Future Microbiol</addtitle><description>To understand the phylogenomics, pathogenic/virulence-associated genes and genomic evolution of pathogenic
species.
We performed
comparative genome analysis of
species using
tools and in-house scripts. We predicted genes and repeats, compared genomes based on synteny, identified orthologous clusters, assessed genes family expansion/contraction, predicted secretory proteins and finally searched for similar sequences from various databases.
The phylogenomics revealed that
species are closely related to
species. The gene family evolutionary analysis revealed the expansion of genes related to virulence (CFEM domain, iron acquisition genes, lysin motif domain), stress response (Su[var]3-9, Enhancer-of-zeste and Trithorax domain and Domain of unknown function 1996), proteases (aspartic protease, x-pro dipeptidyl-peptidase), cell wall composition associated genes (chitin deacetylase, chitinase) and transporters (major facilitator superfamily transporter, oligo-peptide transporter family) in
species.
The present study documents the putative pathogenic/virulence-associated genes in the
species.</description><subject>Algorithms</subject><subject>Annotations</subject><subject>Aspartic endopeptidase</subject><subject>Cell walls</subject><subject>Chitin</subject><subject>Chitin deacetylase</subject><subject>Chitinase</subject><subject>Contraction</subject><subject>Enzymes</subject><subject>Evolutionary genetics</subject><subject>Fungi</subject><subject>Genes</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Infections</subject><subject>Pathogens</subject><subject>Peptidase</subject><subject>Peptide transporter</subject><subject>Phylogenetics</subject><subject>Proteins</subject><subject>Species</subject><subject>Sporothrix</subject><subject>Synteny</subject><subject>Trees</subject><subject>Virulence</subject><subject>X-Pro dipeptidyl-peptidase</subject><issn>1746-0913</issn><issn>1746-0921</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2020</creationdate><recordtype>article</recordtype><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNpdkb1PwzAQxS0EoqUwsqJILCwBf6SxM6KKL6kSAzBHjnOmrho72A6C_x6Hlg4sdzf87undPYTOCb6mlPAb3TU5xaTKMcP0AE0JL8ocV5Qc7mfCJugkhDXGc0EqcowmjBFezamYIr1wXS-9jOYTsnewrjMqZE5nL73zLq68-cpCD8pAyKRtM9OCjUYblTacHcF-iNvtXsaVSxJG5alC1kIE3xkrbQyn6EjLTYCzXZ-ht_u718Vjvnx-eFrcLnPFKIl5w5hOFrUkQpRKU9ASyqqouGhaTRqu20LMiS60ULxV6YpKlXMuKRDccNaUbIautrq9dx8DhFh3JijYbKQFN4SaFiXGoqB4RC__oWs3eJvc_VKV4MlJovItpbwLwYOue2866b9rgusxgDoFUI8B1GMAib_YqQ5NB-2e_vs4-wGPuYK4</recordid><startdate>20201001</startdate><enddate>20201001</enddate><creator>Prakash, Hariprasath</creator><creator>Karuppiah, Ponmurugan</creator><creator>A Al-Dhabi, Naif</creator><creator>Prasad, Gandham S</creator><creator>Badapanda, Chandan</creator><creator>Chakrabarti, Arunaloke</creator><creator>Rudramurthy, Shivaprakash M</creator><general>Future Medicine Ltd</general><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7RV</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>EHMNL</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>KB0</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M7P</scope><scope>NAPCQ</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>7X8</scope><orcidid>https://orcid.org/0000-0002-9097-9253</orcidid><orcidid>https://orcid.org/0000-0003-1555-3807</orcidid></search><sort><creationdate>20201001</creationdate><title>Comparative genomics of Sporothrix species and identification of putative pathogenic-gene determinants</title><author>Prakash, Hariprasath ; Karuppiah, Ponmurugan ; A Al-Dhabi, Naif ; Prasad, Gandham S ; Badapanda, Chandan ; Chakrabarti, Arunaloke ; Rudramurthy, Shivaprakash M</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c321t-b33f819fa1886cf2efae694978bdf1b7fd4851f4f8c7dc3319c657a2e10b73b63</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2020</creationdate><topic>Algorithms</topic><topic>Annotations</topic><topic>Aspartic endopeptidase</topic><topic>Cell walls</topic><topic>Chitin</topic><topic>Chitin deacetylase</topic><topic>Chitinase</topic><topic>Contraction</topic><topic>Enzymes</topic><topic>Evolutionary genetics</topic><topic>Fungi</topic><topic>Genes</topic><topic>Genomes</topic><topic>Genomics</topic><topic>Infections</topic><topic>Pathogens</topic><topic>Peptidase</topic><topic>Peptide transporter</topic><topic>Phylogenetics</topic><topic>Proteins</topic><topic>Species</topic><topic>Sporothrix</topic><topic>Synteny</topic><topic>Trees</topic><topic>Virulence</topic><topic>X-Pro dipeptidyl-peptidase</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Prakash, Hariprasath</creatorcontrib><creatorcontrib>Karuppiah, Ponmurugan</creatorcontrib><creatorcontrib>A Al-Dhabi, Naif</creatorcontrib><creatorcontrib>Prasad, Gandham S</creatorcontrib><creatorcontrib>Badapanda, Chandan</creatorcontrib><creatorcontrib>Chakrabarti, Arunaloke</creatorcontrib><creatorcontrib>Rudramurthy, Shivaprakash M</creatorcontrib><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Nursing & Allied Health Database</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Public Health 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 Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>UK & Ireland Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Nursing & Allied Health Database (Alumni Edition)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Biological Science Database</collection><collection>Nursing & Allied Health Premium</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>MEDLINE - Academic</collection><jtitle>Future microbiology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Prakash, Hariprasath</au><au>Karuppiah, Ponmurugan</au><au>A Al-Dhabi, Naif</au><au>Prasad, Gandham S</au><au>Badapanda, Chandan</au><au>Chakrabarti, Arunaloke</au><au>Rudramurthy, Shivaprakash M</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Comparative genomics of Sporothrix species and identification of putative pathogenic-gene determinants</atitle><jtitle>Future microbiology</jtitle><addtitle>Future Microbiol</addtitle><date>2020-10-01</date><risdate>2020</risdate><volume>15</volume><issue>15</issue><spage>1465</spage><epage>1481</epage><pages>1465-1481</pages><issn>1746-0913</issn><eissn>1746-0921</eissn><abstract>To understand the phylogenomics, pathogenic/virulence-associated genes and genomic evolution of pathogenic
species.
We performed
comparative genome analysis of
species using
tools and in-house scripts. We predicted genes and repeats, compared genomes based on synteny, identified orthologous clusters, assessed genes family expansion/contraction, predicted secretory proteins and finally searched for similar sequences from various databases.
The phylogenomics revealed that
species are closely related to
species. The gene family evolutionary analysis revealed the expansion of genes related to virulence (CFEM domain, iron acquisition genes, lysin motif domain), stress response (Su[var]3-9, Enhancer-of-zeste and Trithorax domain and Domain of unknown function 1996), proteases (aspartic protease, x-pro dipeptidyl-peptidase), cell wall composition associated genes (chitin deacetylase, chitinase) and transporters (major facilitator superfamily transporter, oligo-peptide transporter family) in
species.
The present study documents the putative pathogenic/virulence-associated genes in the
species.</abstract><cop>England</cop><pub>Future Medicine Ltd</pub><pmid>33179528</pmid><doi>10.2217/fmb-2019-0302</doi><tpages>17</tpages><orcidid>https://orcid.org/0000-0002-9097-9253</orcidid><orcidid>https://orcid.org/0000-0003-1555-3807</orcidid></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1746-0913 |
| ispartof | Future microbiology, 2020-10, Vol.15 (15), p.1465-1481 |
| issn | 1746-0913 1746-0921 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_2460084206 |
| source | PubMed Central |
| subjects | Algorithms Annotations Aspartic endopeptidase Cell walls Chitin Chitin deacetylase Chitinase Contraction Enzymes Evolutionary genetics Fungi Genes Genomes Genomics Infections Pathogens Peptidase Peptide transporter Phylogenetics Proteins Species Sporothrix Synteny Trees Virulence X-Pro dipeptidyl-peptidase |
| title | Comparative genomics of Sporothrix species and identification of putative pathogenic-gene determinants |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-01-21T06%3A44%3A46IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-proquest_cross&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Comparative%20genomics%20of%20Sporothrix%20species%20and%20identification%20of%20putative%20pathogenic-gene%20determinants&rft.jtitle=Future%20microbiology&rft.au=Prakash,%20Hariprasath&rft.date=2020-10-01&rft.volume=15&rft.issue=15&rft.spage=1465&rft.epage=1481&rft.pages=1465-1481&rft.issn=1746-0913&rft.eissn=1746-0921&rft_id=info:doi/10.2217/fmb-2019-0302&rft_dat=%3Cproquest_cross%3E2460987819%3C/proquest_cross%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=2460987819&rft_id=info:pmid/33179528&rfr_iscdi=true |