Evidence map›Paper›PMID 29084346›Full record

ArticleThe New phytologist2018

Comparative genomics reveals cotton-specific virulence factors in flexible genomic regions in Verticillium dahliae and evidence of horizontal gene transfer from Fusarium.

Jie-Yin Chen, Chun Liu, Yue-Jing Gui, Kai-Wei Si, Dan-Dan Zhang, Jie Wang, Dylan P G Short, Jin-Qun Huang, Nan-Yang Li, Yong Liang and 10 more

Open access · hybridAbstract readComparative Study
In one paragraph

Article in The New phytologist, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 50 papers.

0numbers the graph read from it
0cells of the map it votes in
50citing papers in PubMed
4.2field-weighted citation impact, top 5% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

50 citing papers in PubMed, 112 citations in OpenAlex.

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  18. Hypothetical Protein VDAG_07742 Is Required forInternational journal of molecular sciences · 2023
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

20 authors at 4 institutions in 2 countries.

Jie-Yin ChenLaboratory of Cotton Disease, Institute of Food Science and Technology, Chinese Academy of Agricultural Sciences, Beijing, 100193, China.
Chun LiuBGI-Shenzhen, Shenzhen, Guangdong, 518083, China.
Yue-Jing GuiLaboratory of Cotton Disease, Institute of Food Science and Technology, Chinese Academy of Agricultural Sciences, Beijing, 100193, China.
Kai-Wei SiBGI-Shenzhen, Shenzhen, Guangdong, 518083, China.
Dan-Dan ZhangLaboratory of Cotton Disease, Institute of Food Science and Technology, Chinese Academy of Agricultural Sciences, Beijing, 100193, China.
Jie WangLaboratory of Cotton Disease, Institute of Food Science and Technology, Chinese Academy of Agricultural Sciences, Beijing, 100193, China.
Dylan P G ShortDepartment of Plant Pathology, University of California, Davis, CA, 95616, USA.
Jin-Qun HuangBGI-Shenzhen, Shenzhen, Guangdong, 518083, China.
Nan-Yang LiLaboratory of Cotton Disease, Institute of Food Science and Technology, Chinese Academy of Agricultural Sciences, Beijing, 100193, China.
Yong LiangBGI-Shenzhen, Shenzhen, Guangdong, 518083, China.
Wen-Qi ZhangLaboratory of Cotton Disease, Institute of Food Science and Technology, Chinese Academy of Agricultural Sciences, Beijing, 100193, China.
Lin YangBGI-Shenzhen, Shenzhen, Guangdong, 518083, China.
Xue-Feng MaLaboratory of Cotton Disease, Institute of Food Science and Technology, Chinese Academy of Agricultural Sciences, Beijing, 100193, China.
Ting-Gang LiLaboratory of Cotton Disease, Institute of Food Science and Technology, Chinese Academy of Agricultural Sciences, Beijing, 100193, China.
Lei ZhouLaboratory of Cotton Disease, Institute of Food Science and Technology, Chinese Academy of Agricultural Sciences, Beijing, 100193, China.
Bao-Li WangLaboratory of Cotton Disease, Institute of Food Science and Technology, Chinese Academy of Agricultural Sciences, Beijing, 100193, China.
Yu-Ming BaoLaboratory of Cotton Disease, Institute of Food Science and Technology, Chinese Academy of Agricultural Sciences, Beijing, 100193, China.
Krishna V SubbaraoDepartment of Plant Pathology, University of California, Davis, CA, 95616, USA.
Geng-Yun ZhangBGI-Shenzhen, Shenzhen, Guangdong, 518083, China.
Xiao-Feng DaiLaboratory of Cotton Disease, Institute of Food Science and Technology, Chinese Academy of Agricultural Sciences, Beijing, 100193, China.
Institute of Food Science and Technology · CNBGI Group (China) · CNChinese Academy of Agricultural Sciences · CNUniversity of California, Davis · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Verticillium dahliae isolates are most virulent on the host from which they were originally isolated. Mechanisms underlying these dominant host adaptations are currently unknown. We sequenced the genome of V. dahliae Vd991, which is highly virulent on its original host, cotton, and performed comparisons with the reference genomes of JR2 (from tomato) and VdLs.17 (from lettuce). Pathogenicity-related factor prediction, orthology and multigene family classification, transcriptome analyses, phylogenetic analyses, and pathogenicity experiments were performed. The Vd991 genome harbored several exclusive, lineage-specific (LS) genes within LS regions (LSRs). Deletion mutants of the seven genes within one LSR (G-LSR2) in Vd991 were less virulent only on cotton. Integration of G-LSR2 genes individually into JR2 and VdLs.17 resulted in significantly enhanced virulence on cotton but did not affect virulence on tomato or lettuce. Transcription levels of the seven LS genes in Vd991 were higher during the early stages of cotton infection, as compared with other hosts. Phylogenetic analyses suggested that G-LSR2 was acquired from Fusarium oxysporum f. sp. vasinfectum through horizontal gene transfer. Our results provide evidence that horizontal gene transfer from Fusarium to Vd991 contributed significantly to its adaptation to cotton and may represent a significant mechanism in the evolution of an asexual plant pathogen.

Indexed as

Gene Transfer, HorizontalGenome, FungalGenomicsBase SequenceEvolution, MolecularFusariumGossypiumHost-Pathogen InteractionsLactucaMultigene FamilyPhylogenySolanum lycopersicumSpecies SpecificitySyntenyVerticilliumVirulenceVirulence Factorscomparative genomicsdominant adaptationhorizontal gene transferlineage-specific genesVerticillium dahliae

Identifiers

PMID29084346
PMCPMC5765495
OpenAlexW2765610488

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.