Identification and characterization of genome-wide resistance gene analogs (RGAs) of durian (Durio zibethinus L.)

BACKGROUND: Durian (Durio zibethinus L.) is a tropical fruit crop which is popular in Southeast Asia but recently gaining popularity in other parts of the world. In this study, we analyzed the resistance gene analogs (RGAs) of durian through mining of the currently available reference genome of its...

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Autores principales: Cortaga, Cris Q., Latina, Romnick A., Habunal, Rosteo R., Lantican, Darlon V.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer Berlin Heidelberg 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8844316/
https://www.ncbi.nlm.nih.gov/pubmed/35157163
http://dx.doi.org/10.1186/s43141-022-00313-8
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author Cortaga, Cris Q.
Latina, Romnick A.
Habunal, Rosteo R.
Lantican, Darlon V.
author_facet Cortaga, Cris Q.
Latina, Romnick A.
Habunal, Rosteo R.
Lantican, Darlon V.
author_sort Cortaga, Cris Q.
collection PubMed
description BACKGROUND: Durian (Durio zibethinus L.) is a tropical fruit crop which is popular in Southeast Asia but recently gaining popularity in other parts of the world. In this study, we analyzed the resistance gene analogs (RGAs) of durian through mining of the currently available reference genome of its ‘Musang King’ cultivar (PRJNA400310). RESULTS: A total of 2586 RGAs were identified in the durian genome consisting of 47 nucleotide binding site proteins (NBS), 158 NBS-leucine rich repeat proteins (NL), 400 coiled-coil NBS-LRR (CNL), 72 toll/interleukin-1 receptor NBS-LRR (TNL), 54 coiled-coil NBS (CN), 10 toll/interleukin-1 receptor NBS (TN), 19 toll/interleukin-1 receptor with unknown domain (TX), 246 receptor-like proteins (RLP), 1,377 receptor-like kinases (RLK), 185 TM-CC, and 18 other NBS-containing proteins with other domains. These RGAs were functionally annotated and characterized via gene ontology (GO) analysis. Among the RGAs with the highest copies in durian genome include the putative disease resistance RPP13-like protein 1, disease resistance protein At4g27190, disease resistance protein RPS6, Probable disease resistance protein At4g27220, and putative disease resistance protein RGA3, while 35 RGAs were found to be novel. Phylogenetic analyses revealed that the genome-wide RGAs were broadly clustered into four major clades based on their domain classification. CONCLUSION: To our knowledge, this is the most comprehensive analysis of durian RGAs which provides a valuable resource for genetic, agronomic, and other biological research of this important tropical fruit crop. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s43141-022-00313-8.
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spelling pubmed-88443162022-03-02 Identification and characterization of genome-wide resistance gene analogs (RGAs) of durian (Durio zibethinus L.) Cortaga, Cris Q. Latina, Romnick A. Habunal, Rosteo R. Lantican, Darlon V. J Genet Eng Biotechnol Short Communications BACKGROUND: Durian (Durio zibethinus L.) is a tropical fruit crop which is popular in Southeast Asia but recently gaining popularity in other parts of the world. In this study, we analyzed the resistance gene analogs (RGAs) of durian through mining of the currently available reference genome of its ‘Musang King’ cultivar (PRJNA400310). RESULTS: A total of 2586 RGAs were identified in the durian genome consisting of 47 nucleotide binding site proteins (NBS), 158 NBS-leucine rich repeat proteins (NL), 400 coiled-coil NBS-LRR (CNL), 72 toll/interleukin-1 receptor NBS-LRR (TNL), 54 coiled-coil NBS (CN), 10 toll/interleukin-1 receptor NBS (TN), 19 toll/interleukin-1 receptor with unknown domain (TX), 246 receptor-like proteins (RLP), 1,377 receptor-like kinases (RLK), 185 TM-CC, and 18 other NBS-containing proteins with other domains. These RGAs were functionally annotated and characterized via gene ontology (GO) analysis. Among the RGAs with the highest copies in durian genome include the putative disease resistance RPP13-like protein 1, disease resistance protein At4g27190, disease resistance protein RPS6, Probable disease resistance protein At4g27220, and putative disease resistance protein RGA3, while 35 RGAs were found to be novel. Phylogenetic analyses revealed that the genome-wide RGAs were broadly clustered into four major clades based on their domain classification. CONCLUSION: To our knowledge, this is the most comprehensive analysis of durian RGAs which provides a valuable resource for genetic, agronomic, and other biological research of this important tropical fruit crop. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s43141-022-00313-8. Springer Berlin Heidelberg 2022-02-14 /pmc/articles/PMC8844316/ /pubmed/35157163 http://dx.doi.org/10.1186/s43141-022-00313-8 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Short Communications
Cortaga, Cris Q.
Latina, Romnick A.
Habunal, Rosteo R.
Lantican, Darlon V.
Identification and characterization of genome-wide resistance gene analogs (RGAs) of durian (Durio zibethinus L.)
title Identification and characterization of genome-wide resistance gene analogs (RGAs) of durian (Durio zibethinus L.)
title_full Identification and characterization of genome-wide resistance gene analogs (RGAs) of durian (Durio zibethinus L.)
title_fullStr Identification and characterization of genome-wide resistance gene analogs (RGAs) of durian (Durio zibethinus L.)
title_full_unstemmed Identification and characterization of genome-wide resistance gene analogs (RGAs) of durian (Durio zibethinus L.)
title_short Identification and characterization of genome-wide resistance gene analogs (RGAs) of durian (Durio zibethinus L.)
title_sort identification and characterization of genome-wide resistance gene analogs (rgas) of durian (durio zibethinus l.)
topic Short Communications
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8844316/
https://www.ncbi.nlm.nih.gov/pubmed/35157163
http://dx.doi.org/10.1186/s43141-022-00313-8
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