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A Primary Survey on Bryophyte Species Reveals Two Novel Classes of Nucleotide-Binding Site (NBS) Genes
Due to their potential roles in pathogen defense, genes encoding nucleotide-binding site (NBS) domain have been particularly surveyed in many angiosperm genomes. Two typical classes were found: one is the TIR-NBS-LRR (TNL) class and the other is the CC-NBS-LRR (CNL) class. It is seldom known, howeve...
Autores principales: | , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2012
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3352924/ https://www.ncbi.nlm.nih.gov/pubmed/22615795 http://dx.doi.org/10.1371/journal.pone.0036700 |
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author | Xue, Jia-Yu Wang, Yue Wu, Ping Wang, Qiang Yang, Le-Tian Pan, Xiao-Han Wang, Bin Chen, Jian-Qun |
author_facet | Xue, Jia-Yu Wang, Yue Wu, Ping Wang, Qiang Yang, Le-Tian Pan, Xiao-Han Wang, Bin Chen, Jian-Qun |
author_sort | Xue, Jia-Yu |
collection | PubMed |
description | Due to their potential roles in pathogen defense, genes encoding nucleotide-binding site (NBS) domain have been particularly surveyed in many angiosperm genomes. Two typical classes were found: one is the TIR-NBS-LRR (TNL) class and the other is the CC-NBS-LRR (CNL) class. It is seldom known, however, what kind of NBS-encoding genes are mainly present in other plant groups, especially the most ancient groups of land plants, that is, bryophytes. To fill this gap of knowledge, in this study, we mainly focused on two bryophyte species: the moss Physcomitrella patens and the liverwort Marchantia polymorpha, to survey their NBS-encoding genes. Surprisingly, two novel classes of NBS-encoding genes were discovered. The first novel class is identified from the P. patens genome and a typical member of this class has a protein kinase (PK) domain at the N-terminus and a LRR domain at the C-terminus, forming a complete structure of PK-NBS-LRR (PNL), reminiscent of TNL and CNL classes in angiosperms. The second class is found from the liverwort genome and a typical member of this class possesses an α/β-hydrolase domain at the N-terminus and also a LRR domain at the C-terminus (Hydrolase-NBS-LRR, HNL). Analysis on intron positions and phases also confirmed the novelty of HNL and PNL classes, as reflected by their specific intron locations or phase characteristics. Phylogenetic analysis covering all four classes of NBS-encoding genes revealed a closer relationship among the HNL, PNL and TNL classes, suggesting the CNL class having a more divergent status from the others. The presence of specific introns highlights the chimerical structures of HNL, PNL and TNL genes, and implies their possible origin via exon-shuffling during the quick lineage separation processes of early land plants. |
format | Online Article Text |
id | pubmed-3352924 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2012 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-33529242012-05-21 A Primary Survey on Bryophyte Species Reveals Two Novel Classes of Nucleotide-Binding Site (NBS) Genes Xue, Jia-Yu Wang, Yue Wu, Ping Wang, Qiang Yang, Le-Tian Pan, Xiao-Han Wang, Bin Chen, Jian-Qun PLoS One Research Article Due to their potential roles in pathogen defense, genes encoding nucleotide-binding site (NBS) domain have been particularly surveyed in many angiosperm genomes. Two typical classes were found: one is the TIR-NBS-LRR (TNL) class and the other is the CC-NBS-LRR (CNL) class. It is seldom known, however, what kind of NBS-encoding genes are mainly present in other plant groups, especially the most ancient groups of land plants, that is, bryophytes. To fill this gap of knowledge, in this study, we mainly focused on two bryophyte species: the moss Physcomitrella patens and the liverwort Marchantia polymorpha, to survey their NBS-encoding genes. Surprisingly, two novel classes of NBS-encoding genes were discovered. The first novel class is identified from the P. patens genome and a typical member of this class has a protein kinase (PK) domain at the N-terminus and a LRR domain at the C-terminus, forming a complete structure of PK-NBS-LRR (PNL), reminiscent of TNL and CNL classes in angiosperms. The second class is found from the liverwort genome and a typical member of this class possesses an α/β-hydrolase domain at the N-terminus and also a LRR domain at the C-terminus (Hydrolase-NBS-LRR, HNL). Analysis on intron positions and phases also confirmed the novelty of HNL and PNL classes, as reflected by their specific intron locations or phase characteristics. Phylogenetic analysis covering all four classes of NBS-encoding genes revealed a closer relationship among the HNL, PNL and TNL classes, suggesting the CNL class having a more divergent status from the others. The presence of specific introns highlights the chimerical structures of HNL, PNL and TNL genes, and implies their possible origin via exon-shuffling during the quick lineage separation processes of early land plants. Public Library of Science 2012-05-15 /pmc/articles/PMC3352924/ /pubmed/22615795 http://dx.doi.org/10.1371/journal.pone.0036700 Text en Xue 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, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited. |
spellingShingle | Research Article Xue, Jia-Yu Wang, Yue Wu, Ping Wang, Qiang Yang, Le-Tian Pan, Xiao-Han Wang, Bin Chen, Jian-Qun A Primary Survey on Bryophyte Species Reveals Two Novel Classes of Nucleotide-Binding Site (NBS) Genes |
title | A Primary Survey on Bryophyte Species Reveals Two Novel Classes of Nucleotide-Binding Site (NBS) Genes |
title_full | A Primary Survey on Bryophyte Species Reveals Two Novel Classes of Nucleotide-Binding Site (NBS) Genes |
title_fullStr | A Primary Survey on Bryophyte Species Reveals Two Novel Classes of Nucleotide-Binding Site (NBS) Genes |
title_full_unstemmed | A Primary Survey on Bryophyte Species Reveals Two Novel Classes of Nucleotide-Binding Site (NBS) Genes |
title_short | A Primary Survey on Bryophyte Species Reveals Two Novel Classes of Nucleotide-Binding Site (NBS) Genes |
title_sort | primary survey on bryophyte species reveals two novel classes of nucleotide-binding site (nbs) genes |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3352924/ https://www.ncbi.nlm.nih.gov/pubmed/22615795 http://dx.doi.org/10.1371/journal.pone.0036700 |
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