Rice transcriptome upon infection with Xanthomonas oryzae pv. oryzae relative to its avirulent T3SS-defective strain exposed modulation of many stress responsive genes
Xanthomonas oryzae pv. oryzae (Xoo) is a destructive pathogen that causes bacterial blight disease of rice worldwide. Xoo uses T3SS (type III secretion system) effectors to subvert rice innate immunity. However, the comprehensive knowledge of rice genes involved in T3SS effectors-mediated interactio...
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| Veröffentlicht in: | 3 Biotech 2022-06, Vol.12 (6), p.130-130, Article 130 |
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| creator | Mondal, Kalyan K. Kulshreshtha, Aditya Handique, Pratap J. Borbora, Debashis Rajrana, Yuvika Verma, Geeta Bhattacharya, Ankita Qamar, Aarzoo Lakshmi, Amrutha Reddy, KishoreKumar Soni, Madhvi Ghoshal, Thungri Rashmi, E. R. Mrutyunjaya, S. Kalaivanan, N. S. Mani, Chander |
| description | Xanthomonas oryzae
pv.
oryzae
(Xoo) is a destructive pathogen that causes bacterial blight disease of rice worldwide. Xoo uses T3SS (type III secretion system) effectors to subvert rice innate immunity. However, the comprehensive knowledge of rice genes involved in T3SS effectors-mediated interaction remains unclear. In this study, the transcriptome profiles of rice infected with a virulent Xoo strain from North-eastern region of India relatives to its avirulent strain (that lacks functional T3SS) were analyzed at early (2–6 hpi) and late (16–24 hpi) hours of infection. Out of total 255 differentially expressed genes (DEGs), during early infection, 62 and 70 genes were upregulated and downregulated, respectively. At late infection, 70 and 53 genes were upregulated and downregulated, respectively. The transcriptomic data identified many differentially expressed resistant genes, transposons, transcription factors, serine/threonine protein kinase, cytochrome P450 and peroxidase genes that are involved in plant defense. Pathway analysis revealed that these DEGs are involved in hormone signaling, plant defense, cellular metabolism, growth and development processes. DEGs associated with plant defense were also validated through quantitative real-time PCR. Our study brings a comprehensive picture of the rice genes that are being differentially expressed during bacterial blight infection. Nevertheless, the DEG-associated pathways would provide sensible targets for developing resistance to bacterial blight. |
| doi_str_mv | 10.1007/s13205-022-03193-4 |
| format | Article |
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pv.
oryzae
(Xoo) is a destructive pathogen that causes bacterial blight disease of rice worldwide. Xoo uses T3SS (type III secretion system) effectors to subvert rice innate immunity. However, the comprehensive knowledge of rice genes involved in T3SS effectors-mediated interaction remains unclear. In this study, the transcriptome profiles of rice infected with a virulent Xoo strain from North-eastern region of India relatives to its avirulent strain (that lacks functional T3SS) were analyzed at early (2–6 hpi) and late (16–24 hpi) hours of infection. Out of total 255 differentially expressed genes (DEGs), during early infection, 62 and 70 genes were upregulated and downregulated, respectively. At late infection, 70 and 53 genes were upregulated and downregulated, respectively. The transcriptomic data identified many differentially expressed resistant genes, transposons, transcription factors, serine/threonine protein kinase, cytochrome P450 and peroxidase genes that are involved in plant defense. Pathway analysis revealed that these DEGs are involved in hormone signaling, plant defense, cellular metabolism, growth and development processes. DEGs associated with plant defense were also validated through quantitative real-time PCR. Our study brings a comprehensive picture of the rice genes that are being differentially expressed during bacterial blight infection. Nevertheless, the DEG-associated pathways would provide sensible targets for developing resistance to bacterial blight.</description><identifier>ISSN: 2190-572X</identifier><identifier>EISSN: 2190-5738</identifier><identifier>DOI: 10.1007/s13205-022-03193-4</identifier><identifier>PMID: 35607392</identifier><language>eng</language><publisher>Cham: Springer International Publishing</publisher><subject>Agriculture ; Bacteria ; Bioinformatics ; Biomaterials ; Biotechnology ; Blight ; Cancer Research ; Chemistry ; Chemistry and Materials Science ; Cytochrome P450 ; Cytochromes P450 ; Defense mechanisms ; Disease resistance ; Effectors ; Genes ; Infections ; Innate immunity ; Kinases ; Original ; Original Article ; Peroxidase ; Plant bacterial diseases ; Protein kinase ; Protein-serine/threonine kinase ; Resistance factors ; Rice ; Stem Cells ; Transcription factors ; Transcriptomes ; Transcriptomics ; Transposons ; Xanthomonas oryzae</subject><ispartof>3 Biotech, 2022-06, Vol.12 (6), p.130-130, Article 130</ispartof><rights>King Abdulaziz City for Science and Technology 2022</rights><rights>King Abdulaziz City for Science and Technology 2022.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c3894-917c725c9b0497563308d7b6fb4bfc651b1779992db405617bd68dbecdf136ea3</citedby><cites>FETCH-LOGICAL-c3894-917c725c9b0497563308d7b6fb4bfc651b1779992db405617bd68dbecdf136ea3</cites><orcidid>0000-0002-1093-1269 ; 0000-0001-8326-1342 ; 0000-0002-8301-2183 ; 0000-0003-3965-8048 ; 0000-0002-0325-8969 ; 0000-0002-4312-0200 ; 0000-0002-3467-0526</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC9123152/pdf/$$EPDF$$P50$$Gpubmedcentral$$H</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC9123152/$$EHTML$$P50$$Gpubmedcentral$$H</linktohtml><link.rule.ids>230,314,727,780,784,885,27924,27925,41488,42557,51319,53791,53793</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/35607392$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Mondal, Kalyan K.</creatorcontrib><creatorcontrib>Kulshreshtha, Aditya</creatorcontrib><creatorcontrib>Handique, Pratap J.</creatorcontrib><creatorcontrib>Borbora, Debashis</creatorcontrib><creatorcontrib>Rajrana, Yuvika</creatorcontrib><creatorcontrib>Verma, Geeta</creatorcontrib><creatorcontrib>Bhattacharya, Ankita</creatorcontrib><creatorcontrib>Qamar, Aarzoo</creatorcontrib><creatorcontrib>Lakshmi, Amrutha</creatorcontrib><creatorcontrib>Reddy, KishoreKumar</creatorcontrib><creatorcontrib>Soni, Madhvi</creatorcontrib><creatorcontrib>Ghoshal, Thungri</creatorcontrib><creatorcontrib>Rashmi, E. R.</creatorcontrib><creatorcontrib>Mrutyunjaya, S.</creatorcontrib><creatorcontrib>Kalaivanan, N. S.</creatorcontrib><creatorcontrib>Mani, Chander</creatorcontrib><title>Rice transcriptome upon infection with Xanthomonas oryzae pv. oryzae relative to its avirulent T3SS-defective strain exposed modulation of many stress responsive genes</title><title>3 Biotech</title><addtitle>3 Biotech</addtitle><addtitle>3 Biotech</addtitle><description>Xanthomonas oryzae
pv.
oryzae
(Xoo) is a destructive pathogen that causes bacterial blight disease of rice worldwide. Xoo uses T3SS (type III secretion system) effectors to subvert rice innate immunity. However, the comprehensive knowledge of rice genes involved in T3SS effectors-mediated interaction remains unclear. In this study, the transcriptome profiles of rice infected with a virulent Xoo strain from North-eastern region of India relatives to its avirulent strain (that lacks functional T3SS) were analyzed at early (2–6 hpi) and late (16–24 hpi) hours of infection. Out of total 255 differentially expressed genes (DEGs), during early infection, 62 and 70 genes were upregulated and downregulated, respectively. At late infection, 70 and 53 genes were upregulated and downregulated, respectively. The transcriptomic data identified many differentially expressed resistant genes, transposons, transcription factors, serine/threonine protein kinase, cytochrome P450 and peroxidase genes that are involved in plant defense. Pathway analysis revealed that these DEGs are involved in hormone signaling, plant defense, cellular metabolism, growth and development processes. DEGs associated with plant defense were also validated through quantitative real-time PCR. Our study brings a comprehensive picture of the rice genes that are being differentially expressed during bacterial blight infection. Nevertheless, the DEG-associated pathways would provide sensible targets for developing resistance to bacterial blight.</description><subject>Agriculture</subject><subject>Bacteria</subject><subject>Bioinformatics</subject><subject>Biomaterials</subject><subject>Biotechnology</subject><subject>Blight</subject><subject>Cancer Research</subject><subject>Chemistry</subject><subject>Chemistry and Materials Science</subject><subject>Cytochrome P450</subject><subject>Cytochromes P450</subject><subject>Defense mechanisms</subject><subject>Disease resistance</subject><subject>Effectors</subject><subject>Genes</subject><subject>Infections</subject><subject>Innate immunity</subject><subject>Kinases</subject><subject>Original</subject><subject>Original Article</subject><subject>Peroxidase</subject><subject>Plant bacterial diseases</subject><subject>Protein kinase</subject><subject>Protein-serine/threonine kinase</subject><subject>Resistance factors</subject><subject>Rice</subject><subject>Stem Cells</subject><subject>Transcription factors</subject><subject>Transcriptomes</subject><subject>Transcriptomics</subject><subject>Transposons</subject><subject>Xanthomonas oryzae</subject><issn>2190-572X</issn><issn>2190-5738</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2022</creationdate><recordtype>article</recordtype><recordid>eNp9ks1q3DAQgE1paUKSF-ihCHrpxal-LMm6FEpIfyBQSFLITcjyeFfBllzJ3nb7Qn3Nytlk2-YQXTQw33yjQVMUrwg-JRjLd4kwinmJKS0xI4qV1bPikBKFSy5Z_Xwf05uD4iSlW5wPJ1wR_LI4YFxgyRQ9LH5fOgtoisYnG904hQHQPAaPnO_ATi5HP9y0RjfGT-swBG8SCnH7ywAaN6cPYYTeTG6TRQG5KSGzcXHuwU_oml1dlS3cuXI-5U7OI_g5hgQtGkI7L5W5S-jQYPx2ISClbEz5FWmpWYGHdFy86Eyf4OT-Piq-fTy_PvtcXnz99OXsw0VpWa2qUhFpJeVWNbhSkgvGcN3KRnRN1XRWcNIQKZVStG0qzAWRTSvqtgHbdoQJMOyoeL_zjnMzQGvzDNH0eoxuMHGrg3H6_4x3a70KG60IZYTTLHh7L4jh-wxp0oNLFvreeAhz0lSIOrOCVBl98wi9DXP0ebyFkrSqZV1niu4oG0NKEbr9YwjWyyro3SrovAr6bhX0on797xj7koePzwDbASmn_Ari395PaP8AJ4_DtQ</recordid><startdate>20220601</startdate><enddate>20220601</enddate><creator>Mondal, Kalyan K.</creator><creator>Kulshreshtha, Aditya</creator><creator>Handique, Pratap J.</creator><creator>Borbora, Debashis</creator><creator>Rajrana, Yuvika</creator><creator>Verma, Geeta</creator><creator>Bhattacharya, Ankita</creator><creator>Qamar, Aarzoo</creator><creator>Lakshmi, Amrutha</creator><creator>Reddy, KishoreKumar</creator><creator>Soni, Madhvi</creator><creator>Ghoshal, Thungri</creator><creator>Rashmi, E. 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S.</creator><creator>Mani, Chander</creator><general>Springer International Publishing</general><general>Springer Nature B.V</general><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>5PM</scope><orcidid>https://orcid.org/0000-0002-1093-1269</orcidid><orcidid>https://orcid.org/0000-0001-8326-1342</orcidid><orcidid>https://orcid.org/0000-0002-8301-2183</orcidid><orcidid>https://orcid.org/0000-0003-3965-8048</orcidid><orcidid>https://orcid.org/0000-0002-0325-8969</orcidid><orcidid>https://orcid.org/0000-0002-4312-0200</orcidid><orcidid>https://orcid.org/0000-0002-3467-0526</orcidid></search><sort><creationdate>20220601</creationdate><title>Rice transcriptome upon infection with Xanthomonas oryzae pv. oryzae relative to its avirulent T3SS-defective strain exposed modulation of many stress responsive genes</title><author>Mondal, Kalyan K. ; Kulshreshtha, Aditya ; Handique, Pratap J. ; Borbora, Debashis ; Rajrana, Yuvika ; Verma, Geeta ; Bhattacharya, Ankita ; Qamar, Aarzoo ; Lakshmi, Amrutha ; Reddy, KishoreKumar ; Soni, Madhvi ; Ghoshal, Thungri ; Rashmi, E. 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S.</au><au>Mani, Chander</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Rice transcriptome upon infection with Xanthomonas oryzae pv. oryzae relative to its avirulent T3SS-defective strain exposed modulation of many stress responsive genes</atitle><jtitle>3 Biotech</jtitle><stitle>3 Biotech</stitle><addtitle>3 Biotech</addtitle><date>2022-06-01</date><risdate>2022</risdate><volume>12</volume><issue>6</issue><spage>130</spage><epage>130</epage><pages>130-130</pages><artnum>130</artnum><issn>2190-572X</issn><eissn>2190-5738</eissn><abstract>Xanthomonas oryzae
pv.
oryzae
(Xoo) is a destructive pathogen that causes bacterial blight disease of rice worldwide. Xoo uses T3SS (type III secretion system) effectors to subvert rice innate immunity. However, the comprehensive knowledge of rice genes involved in T3SS effectors-mediated interaction remains unclear. In this study, the transcriptome profiles of rice infected with a virulent Xoo strain from North-eastern region of India relatives to its avirulent strain (that lacks functional T3SS) were analyzed at early (2–6 hpi) and late (16–24 hpi) hours of infection. Out of total 255 differentially expressed genes (DEGs), during early infection, 62 and 70 genes were upregulated and downregulated, respectively. At late infection, 70 and 53 genes were upregulated and downregulated, respectively. The transcriptomic data identified many differentially expressed resistant genes, transposons, transcription factors, serine/threonine protein kinase, cytochrome P450 and peroxidase genes that are involved in plant defense. Pathway analysis revealed that these DEGs are involved in hormone signaling, plant defense, cellular metabolism, growth and development processes. DEGs associated with plant defense were also validated through quantitative real-time PCR. Our study brings a comprehensive picture of the rice genes that are being differentially expressed during bacterial blight infection. Nevertheless, the DEG-associated pathways would provide sensible targets for developing resistance to bacterial blight.</abstract><cop>Cham</cop><pub>Springer International Publishing</pub><pmid>35607392</pmid><doi>10.1007/s13205-022-03193-4</doi><tpages>1</tpages><orcidid>https://orcid.org/0000-0002-1093-1269</orcidid><orcidid>https://orcid.org/0000-0001-8326-1342</orcidid><orcidid>https://orcid.org/0000-0002-8301-2183</orcidid><orcidid>https://orcid.org/0000-0003-3965-8048</orcidid><orcidid>https://orcid.org/0000-0002-0325-8969</orcidid><orcidid>https://orcid.org/0000-0002-4312-0200</orcidid><orcidid>https://orcid.org/0000-0002-3467-0526</orcidid><oa>free_for_read</oa></addata></record> |
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| ispartof | 3 Biotech, 2022-06, Vol.12 (6), p.130-130, Article 130 |
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| source | SpringerNature Journals; EZB-FREE-00999 freely available EZB journals; PubMed Central |
| subjects | Agriculture Bacteria Bioinformatics Biomaterials Biotechnology Blight Cancer Research Chemistry Chemistry and Materials Science Cytochrome P450 Cytochromes P450 Defense mechanisms Disease resistance Effectors Genes Infections Innate immunity Kinases Original Original Article Peroxidase Plant bacterial diseases Protein kinase Protein-serine/threonine kinase Resistance factors Rice Stem Cells Transcription factors Transcriptomes Transcriptomics Transposons Xanthomonas oryzae |
| title | Rice transcriptome upon infection with Xanthomonas oryzae pv. oryzae relative to its avirulent T3SS-defective strain exposed modulation of many stress responsive genes |
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