Genome sequencing and transcript analysis of Hemileia vastatrix reveal expression dynamics of candidate effectors dependent on host compatibility.
Journal
PloS one
ISSN: 1932-6203
Titre abrégé: PLoS One
Pays: United States
ID NLM: 101285081
Informations de publication
Date de publication:
2019
2019
Historique:
received:
23
11
2018
accepted:
04
04
2019
entrez:
19
4
2019
pubmed:
19
4
2019
medline:
8
1
2020
Statut:
epublish
Résumé
Coffee leaf rust caused by the fungus Hemileia vastatrix is one of the most important leaf diseases of coffee plantations worldwide. Current knowledge of the H. vastatrix genome is limited and only a small fraction of the total fungal secretome has been identified. In order to obtain a more comprehensive understanding of its secretome, we aimed to sequence and assemble the entire H. vastatrix genome using two next-generation sequencing platforms and a hybrid assembly strategy. This resulted in a 547 Mb genome of H. vastatrix race XXXIII (Hv33), with 13,364 predicted genes that encode 13,034 putative proteins with transcriptomic support. Based on this proteome, 615 proteins contain putative secretion peptides, and lack transmembrane domains. From this putative secretome, 111 proteins were identified as candidate effectors (EHv33) unique to H. vastatrix, and a subset consisting of 17 EHv33 genes was selected for a temporal gene expression analysis during infection. Five genes were significantly induced early during an incompatible interaction, indicating their potential role as pre-haustorial effectors possibly recognized by the resistant coffee genotype. Another nine genes were significantly induced after haustorium formation in the compatible interaction. Overall, we suggest that this fungus is able to selectively mount its survival strategy with effectors that depend on the host genotype involved in the infection process.
Identifiants
pubmed: 30998802
doi: 10.1371/journal.pone.0215598
pii: PONE-D-18-33670
pmc: PMC6472787
doi:
Banques de données
figshare
['10.6084/m9.figshare.7940411']
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
e0215598Déclaration de conflit d'intérêts
The authors have declared that no competing interests exist.
Références
Mob DNA. 2015 Jun 02;6:11
pubmed: 26045719
J Mol Biol. 2000 Jul 21;300(4):1005-16
pubmed: 10891285
Bioinformatics. 2007 May 1;23(9):1061-7
pubmed: 17332020
Front Plant Sci. 2014 Oct 31;5:594
pubmed: 25400655
Genome Res. 2008 Dec;18(12):1979-90
pubmed: 18757608
Nature. 2006 Nov 16;444(7117):323-9
pubmed: 17108957
Annu Rev Phytopathol. 2012;50:91-109
pubmed: 22559067
New Phytol. 2017 Feb;213(3):1315-1329
pubmed: 27918080
PLoS One. 2011;6(8):e24230
pubmed: 21909385
Front Cell Infect Microbiol. 2013 Oct 14;3:65
pubmed: 24133658
Front Plant Sci. 2015 Jan 08;5:759
pubmed: 25620970
Gigascience. 2012 Dec 27;1(1):18
pubmed: 23587118
Nat Biotechnol. 2011 May 15;29(7):644-52
pubmed: 21572440
Front Plant Sci. 2014 Aug 26;5:422
pubmed: 25206357
Nat Methods. 2011 Sep 29;8(10):785-6
pubmed: 21959131
Curr Opin Plant Biol. 2009 Aug;12(4):399-405
pubmed: 19540152
Phytopathology. 2015 Sep;105(9):1164-73
pubmed: 26371395
Mol Plant Microbe Interact. 2009 Feb;22(2):115-22
pubmed: 19132864
Front Plant Sci. 2014 Mar 24;5:98
pubmed: 24715894
Mol Plant Pathol. 2009 Nov;10(6):735-47
pubmed: 19849781
Bioinformatics. 2015 Oct 1;31(19):3210-2
pubmed: 26059717
Genome Res. 2008 Jan;18(1):188-96
pubmed: 18025269
Front Plant Sci. 2014 Mar 14;5:88
pubmed: 24672531
Annu Rev Phytopathol. 2008;46:189-215
pubmed: 18422429
Mol Plant Pathol. 2017 Oct;18(8):1039-1051
pubmed: 27885775
BMC Genomics. 2013 Apr 22;14:270
pubmed: 23607900
Mol Plant Microbe Interact. 2014 Mar;27(3):196-206
pubmed: 24405032
Bioinformatics. 2000 Nov;16(11):1040-1
pubmed: 11159316
Nucleic Acids Res. 2015 Jul 1;43(W1):W78-84
pubmed: 25964301
Bioinformatics. 2005 Sep 15;21(18):3674-6
pubmed: 16081474
Nucleic Acids Res. 2001 May 1;29(9):e45
pubmed: 11328886
J Mol Biol. 2001 Jan 19;305(3):567-80
pubmed: 11152613
Annu Rev Phytopathol. 2009;47:233-63
pubmed: 19400631
BMC Bioinformatics. 2012 Sep 19;13:238
pubmed: 22988817
Front Microbiol. 2016 Apr 27;7:600
pubmed: 27199930
PLoS One. 2012;7(11):e47768
pubmed: 23185243
Fungal Biol. 2011 Sep;115(9):891-901
pubmed: 21872186
Nat Methods. 2013 Jun;10(6):563-9
pubmed: 23644548
Nucleic Acids Res. 2007 Jul;35(Web Server issue):W585-7
pubmed: 17517783
Mol Plant Pathol. 2012 Jan;13(1):17-37
pubmed: 21726390
Proc Natl Acad Sci U S A. 2011 May 31;108(22):9166-71
pubmed: 21536894
Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W309-12
pubmed: 15215400
Nature. 2010 Jun 17;465(7300):922-6
pubmed: 20485343
J Mol Biol. 1990 Oct 5;215(3):403-10
pubmed: 2231712