The Zymoseptoria tritici ORFeome: A Functional Genomics Community Resource
Libraries of protein-encoding sequences can be generated by identification of open reading frames (ORFs) from a genome of choice that are then assembled into collections of plasmids termed ORFeome libraries. These represent powerful resources to facilitate functional genomic characterization of gene...
| Main Authors: | , , , , , , , , |
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| Format: | Article |
| Language: | English |
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The American Phytopathological Society
2019-12-01
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| Series: | Molecular Plant-Microbe Interactions |
| Subjects: | |
| Online Access: | https://apsjournals.apsnet.org/doi/10.1094/MPMI-05-19-0123-A |
| _version_ | 1819084988692299776 |
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| author | Yogesh Chaudhari Timothy C. Cairns Yaadwinder Sidhu Victoria Attah Graham Thomas Michael Csukai Nicholas J. Talbot David J. Studholme Ken Haynes |
| author_facet | Yogesh Chaudhari Timothy C. Cairns Yaadwinder Sidhu Victoria Attah Graham Thomas Michael Csukai Nicholas J. Talbot David J. Studholme Ken Haynes |
| author_sort | Yogesh Chaudhari |
| collection | DOAJ |
| description | Libraries of protein-encoding sequences can be generated by identification of open reading frames (ORFs) from a genome of choice that are then assembled into collections of plasmids termed ORFeome libraries. These represent powerful resources to facilitate functional genomic characterization of genes and their encoded products. Here, we report the generation of an ORFeome for Zymoseptoria tritici, which causes the most serious disease of wheat in temperate regions of the world. We screened the genome of strain IP0323 for high confidence gene models, identifying 4,075 candidates from 10,933 predicted genes. These were amplified from genomic DNA, were cloned into the Gateway entry vector pDONR207, and were sequenced, providing a total of 3,022 quality-controlled plasmids. The ORFeome includes genes predicted to encode effectors (n = 410) and secondary metabolite biosynthetic proteins (n = 171) in addition to genes residing at dispensable chromosomes (n = 122) or those that are preferentially expressed during plant infection (n = 527). The ORFeome plasmid library is compatible with our previously developed suite of Gateway destination vectors, which have various combinations of promoters, selection markers, and epitope tags. The Z. tritici ORFeome constitutes a powerful resource for functional genomics and offers unparalleled opportunities to understand the biology of Z. tritici.[Graphic: see text] Copyright © 2019 The Author(s). This is an open access article distributed under the CC BY 4.0 International license. |
| first_indexed | 2024-12-21T20:57:13Z |
| format | Article |
| id | doaj.art-951f917adec14772a3343906bb73a98b |
| institution | Directory Open Access Journal |
| issn | 0894-0282 1943-7706 |
| language | English |
| last_indexed | 2024-12-21T20:57:13Z |
| publishDate | 2019-12-01 |
| publisher | The American Phytopathological Society |
| record_format | Article |
| series | Molecular Plant-Microbe Interactions |
| spelling | doaj.art-951f917adec14772a3343906bb73a98b2022-12-21T18:50:33ZengThe American Phytopathological SocietyMolecular Plant-Microbe Interactions0894-02821943-77062019-12-0132121564157010.1094/MPMI-05-19-0123-AThe Zymoseptoria tritici ORFeome: A Functional Genomics Community ResourceYogesh Chaudhari0Timothy C. Cairns1Yaadwinder Sidhu2Victoria Attah3Graham Thomas4Michael Csukai5Nicholas J. Talbot6David J. Studholme7Ken Haynes8Biosciences, University of Exeter, Exeter EX4 4QD, U.K.Biosciences, University of Exeter, Exeter EX4 4QD, U.K.Biosciences, University of Exeter, Exeter EX4 4QD, U.K.Biosciences, University of Exeter, Exeter EX4 4QD, U.K.Biosciences, University of Exeter, Exeter EX4 4QD, U.K.Syngenta, Jealott’s Hill International Research Centre, Bracknell, RG42 6EY, U.K.The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, NR47UH, U.K.Biosciences, University of Exeter, Exeter EX4 4QD, U.K.Biosciences, University of Exeter, Exeter EX4 4QD, U.K.Libraries of protein-encoding sequences can be generated by identification of open reading frames (ORFs) from a genome of choice that are then assembled into collections of plasmids termed ORFeome libraries. These represent powerful resources to facilitate functional genomic characterization of genes and their encoded products. Here, we report the generation of an ORFeome for Zymoseptoria tritici, which causes the most serious disease of wheat in temperate regions of the world. We screened the genome of strain IP0323 for high confidence gene models, identifying 4,075 candidates from 10,933 predicted genes. These were amplified from genomic DNA, were cloned into the Gateway entry vector pDONR207, and were sequenced, providing a total of 3,022 quality-controlled plasmids. The ORFeome includes genes predicted to encode effectors (n = 410) and secondary metabolite biosynthetic proteins (n = 171) in addition to genes residing at dispensable chromosomes (n = 122) or those that are preferentially expressed during plant infection (n = 527). The ORFeome plasmid library is compatible with our previously developed suite of Gateway destination vectors, which have various combinations of promoters, selection markers, and epitope tags. The Z. tritici ORFeome constitutes a powerful resource for functional genomics and offers unparalleled opportunities to understand the biology of Z. tritici.[Graphic: see text] Copyright © 2019 The Author(s). This is an open access article distributed under the CC BY 4.0 International license.https://apsjournals.apsnet.org/doi/10.1094/MPMI-05-19-0123-AORFeomeZymoseptoria triticiMycosphaerella graminicolafunctional genomics |
| spellingShingle | Yogesh Chaudhari Timothy C. Cairns Yaadwinder Sidhu Victoria Attah Graham Thomas Michael Csukai Nicholas J. Talbot David J. Studholme Ken Haynes The Zymoseptoria tritici ORFeome: A Functional Genomics Community Resource Molecular Plant-Microbe Interactions ORFeome Zymoseptoria tritici Mycosphaerella graminicola functional genomics |
| title | The Zymoseptoria tritici ORFeome: A Functional Genomics Community Resource |
| title_full | The Zymoseptoria tritici ORFeome: A Functional Genomics Community Resource |
| title_fullStr | The Zymoseptoria tritici ORFeome: A Functional Genomics Community Resource |
| title_full_unstemmed | The Zymoseptoria tritici ORFeome: A Functional Genomics Community Resource |
| title_short | The Zymoseptoria tritici ORFeome: A Functional Genomics Community Resource |
| title_sort | zymoseptoria tritici orfeome a functional genomics community resource |
| topic | ORFeome Zymoseptoria tritici Mycosphaerella graminicola functional genomics |
| url | https://apsjournals.apsnet.org/doi/10.1094/MPMI-05-19-0123-A |
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