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RNA-Seq analysis reveals an essential role of tyrosine metabolism pathway in response to root-rot infection in Gerbera hybrida

Gerbera hybrida is one of the top five cut flowers across the world, it is host for the root rot causing parasite called Phytophthora cryptogea. In this study, plantlets of healthy and root-rot pathogen-infected G. hybrida were used as plant materials for transcriptome analyis using high-throughput...

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Autores principales: Munir, Nigarish, Cheng, Chunzhen, Xia, Chaoshui, Xu, Xuming, Nawaz, Muhammad Azher, Iftikhar, Junaid, Chen, Yukun, Lin, Yuling, Lai, Zhongxiong
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6808435/
https://www.ncbi.nlm.nih.gov/pubmed/31644543
http://dx.doi.org/10.1371/journal.pone.0223519
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author Munir, Nigarish
Cheng, Chunzhen
Xia, Chaoshui
Xu, Xuming
Nawaz, Muhammad Azher
Iftikhar, Junaid
Chen, Yukun
Lin, Yuling
Lai, Zhongxiong
author_facet Munir, Nigarish
Cheng, Chunzhen
Xia, Chaoshui
Xu, Xuming
Nawaz, Muhammad Azher
Iftikhar, Junaid
Chen, Yukun
Lin, Yuling
Lai, Zhongxiong
author_sort Munir, Nigarish
collection PubMed
description Gerbera hybrida is one of the top five cut flowers across the world, it is host for the root rot causing parasite called Phytophthora cryptogea. In this study, plantlets of healthy and root-rot pathogen-infected G. hybrida were used as plant materials for transcriptome analyis using high-throughput Illumina sequencing technique. A total 108,135 unigenes were generated with an average length of 727 nt and N50 equal to 1274 nt out of which 611 genes were identified as DEGs by DESeq analyses. Among DEGs, 228 genes were up-regulated and 383 were down-regulated. Through this annotated data and Kyoto encyclopedia of genes and genomes (KEGG), molecular interaction network, transcripts accompanying with tyrosine metabolism, phenylalanine, tyrosine, and tryptophan biosynthesis, phenylpropanoid and flavonoid biosynthesis, and plant hormone signal transduction pathways were thoroughly observed considering expression pattern. The involvement of DEGs in tyrosine metabolism pathway was validated by real-time qPCR. We found that genes related with tyrosine metabolism were activated and up-regulated against stress response. The expression of GhTAT, GhAAT, GhHPD, GhHGD and GhFAH genes was significantly increased in the leaves and petioles at four and six dpi (days post inoculation) as compared with control. The study predicts the gene sequences responsible for the tyrosine metabolism pathway and its responses against root-rot resistance in gerbera plant. In future, identification of such genes is necessary for the better understanding of rot resistance mechanism and to develop a root rot resistance strategy for ornamental plants.
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spelling pubmed-68084352019-11-02 RNA-Seq analysis reveals an essential role of tyrosine metabolism pathway in response to root-rot infection in Gerbera hybrida Munir, Nigarish Cheng, Chunzhen Xia, Chaoshui Xu, Xuming Nawaz, Muhammad Azher Iftikhar, Junaid Chen, Yukun Lin, Yuling Lai, Zhongxiong PLoS One Research Article Gerbera hybrida is one of the top five cut flowers across the world, it is host for the root rot causing parasite called Phytophthora cryptogea. In this study, plantlets of healthy and root-rot pathogen-infected G. hybrida were used as plant materials for transcriptome analyis using high-throughput Illumina sequencing technique. A total 108,135 unigenes were generated with an average length of 727 nt and N50 equal to 1274 nt out of which 611 genes were identified as DEGs by DESeq analyses. Among DEGs, 228 genes were up-regulated and 383 were down-regulated. Through this annotated data and Kyoto encyclopedia of genes and genomes (KEGG), molecular interaction network, transcripts accompanying with tyrosine metabolism, phenylalanine, tyrosine, and tryptophan biosynthesis, phenylpropanoid and flavonoid biosynthesis, and plant hormone signal transduction pathways were thoroughly observed considering expression pattern. The involvement of DEGs in tyrosine metabolism pathway was validated by real-time qPCR. We found that genes related with tyrosine metabolism were activated and up-regulated against stress response. The expression of GhTAT, GhAAT, GhHPD, GhHGD and GhFAH genes was significantly increased in the leaves and petioles at four and six dpi (days post inoculation) as compared with control. The study predicts the gene sequences responsible for the tyrosine metabolism pathway and its responses against root-rot resistance in gerbera plant. In future, identification of such genes is necessary for the better understanding of rot resistance mechanism and to develop a root rot resistance strategy for ornamental plants. Public Library of Science 2019-10-23 /pmc/articles/PMC6808435/ /pubmed/31644543 http://dx.doi.org/10.1371/journal.pone.0223519 Text en © 2019 Munir et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
spellingShingle Research Article
Munir, Nigarish
Cheng, Chunzhen
Xia, Chaoshui
Xu, Xuming
Nawaz, Muhammad Azher
Iftikhar, Junaid
Chen, Yukun
Lin, Yuling
Lai, Zhongxiong
RNA-Seq analysis reveals an essential role of tyrosine metabolism pathway in response to root-rot infection in Gerbera hybrida
title RNA-Seq analysis reveals an essential role of tyrosine metabolism pathway in response to root-rot infection in Gerbera hybrida
title_full RNA-Seq analysis reveals an essential role of tyrosine metabolism pathway in response to root-rot infection in Gerbera hybrida
title_fullStr RNA-Seq analysis reveals an essential role of tyrosine metabolism pathway in response to root-rot infection in Gerbera hybrida
title_full_unstemmed RNA-Seq analysis reveals an essential role of tyrosine metabolism pathway in response to root-rot infection in Gerbera hybrida
title_short RNA-Seq analysis reveals an essential role of tyrosine metabolism pathway in response to root-rot infection in Gerbera hybrida
title_sort rna-seq analysis reveals an essential role of tyrosine metabolism pathway in response to root-rot infection in gerbera hybrida
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6808435/
https://www.ncbi.nlm.nih.gov/pubmed/31644543
http://dx.doi.org/10.1371/journal.pone.0223519
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