Extensive chromosomal rearrangements and rapid evolution of novel effector superfamilies contribute to host adaptation and speciation in the basal ascomycetous fungi.

Abstract:

:The basal ascomycetes in genus Taphrina have strict host specificity and coevolution with their host plants, making them appealing models for studying the genomic basis of ecological divergence and host adaption. We therefore performed genome sequencing and comparative genomics of different Taphrina species with distinct host ranges to reveal their evolution. We identified frequent chromosomal rearrangements and highly dynamic lineage-specific (LS) genomic regions in Taphrina genomes. The LS regions occur at the flanking regions of chromosomal breakpoints, and are greatly enriched for DNA repeats, non-core genes, and in planta up-regulated genes. Furthermore, we identified hundreds of candidate secreted effector proteins (CSEPs) that are commonly organized in gene clusters that form distinct AT-rich isochore-like regions. Nearly half of the CSEPs constitute two novel superfamilies with modular structures unique to Taphrina. These CSEPs are commonly up-regulated during infection, enriched in the LS regions, evolved faster, and underwent extensive gene gain and loss in different species. In addition to displaying signatures of positive selection, functional characterization of selected CSEP genes confirmed their roles in suppression of plant defence responses. Overall, our results showed that extensive chromosomal rearrangements and rapidly evolving CSEP superfamilies play important roles in speciation and host adaptation in the early-branching ascomycetous fungi.

journal_name

Mol Plant Pathol

authors

Wang Q,Sun M,Zhang Y,Song Z,Zhang S,Zhang Q,Xu JR,Liu H

doi

10.1111/mpp.12899

subject

Has Abstract

pub_date

2020-03-01 00:00:00

pages

330-348

issue

3

eissn

1464-6722

issn

1364-3703

journal_volume

21

pub_type

杂志文章
  • A single amino acid change in the coat protein of Maize streak virus abolishes systemic infection, but not interaction with viral DNA or movement protein.

    abstract::Summary Functional coat protein (CP) is important for host plant infection by monopartite geminiviruses. We identified a proline-cysteine-lysine (PCK) motif at amino acids 180-182 of the maize streak virus (MSV) CP that is conserved in most of the cereal-infecting Mastreviruses. Substitution of the lysine (K) with a v...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1046/j.1464-6722.2001.00068.x

    authors: Liu H,Lucy AP,Davies JW,Boulton MI

    更新日期:2001-07-01 00:00:00

  • Ralfuranones contribute to mushroom-type biofilm formation by Ralstonia solanacearum strain OE1-1.

    abstract::After invasion into intercellular spaces of tomato plants, the soil-borne, plant-pathogenic Ralstonia solanacearum strain OE1-1 forms mushroom-shaped biofilms (mushroom-type biofilms, mBFs) on tomato cells, leading to its virulence. The strain OE1-1 produces aryl-furanone secondary metabolites, ralfuranones (A, B, J, ...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12583

    authors: Mori Y,Hosoi Y,Ishikawa S,Hayashi K,Asai Y,Ohnishi H,Shimatani M,Inoue K,Ikeda K,Nakayashiki H,Nishimura Y,Ohnishi K,Kiba A,Kai K,Hikichi Y

    更新日期:2018-04-01 00:00:00

  • Comparative proteomic analysis of Xanthomonas citri ssp. citri periplasmic proteins reveals changes in cellular envelope metabolism during in vitro pathogenicity induction.

    abstract::Citrus canker is a plant disease caused by Gram-negative bacteria from the genus Xanthomonas. The most virulent species is Xanthomonas citri ssp. citri (XAC), which attacks a wide range of citrus hosts. Differential proteomic analysis of the periplasm-enriched fraction was performed for XAC cells grown in pathogenicit...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12507

    authors: Artier J,da Silva Zandonadi F,de Souza Carvalho FM,Pauletti BA,Leme AFP,Carnielli CM,Selistre-de-Araujo HS,Bertolini MC,Ferro JA,Belasque Júnior J,de Oliveira JCF,Novo-Mansur MTM

    更新日期:2018-01-01 00:00:00

  • Mutual interplay between phytopathogenic powdery mildew fungi and other microorganisms.

    abstract::Powdery mildew is a common and widespread plant disease of considerable agronomic relevance. It is caused by obligate biotrophic fungal pathogens which, in most cases, epiphytically colonize aboveground plant tissues. The disease has been typically studied as a binary interaction of the fungal pathogen with its plant ...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章,评审

    doi:10.1111/mpp.12771

    authors: Panstruga R,Kuhn H

    更新日期:2019-04-01 00:00:00

  • An RXLR effector secreted by Phytophthora parasitica is a virulence factor and triggers cell death in various plants.

    abstract::RXLR effectors encoded by Phytophthora species play a central role in pathogen-plant interactions. An understanding of the biological functions of RXLR effectors is conducive to the illumination of the pathogenic mechanisms and the development of disease control strategies. However, the virulence function of Phytophth...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12760

    authors: Huang G,Liu Z,Gu B,Zhao H,Jia J,Fan G,Meng Y,Du Y,Shan W

    更新日期:2019-03-01 00:00:00

  • Successful pod infections by Moniliophthora roreri result in differential Theobroma cacao gene expression depending on the clone's level of tolerance.

    abstract::An understanding of the tolerance mechanisms of Theobroma cacao used against Moniliophthora roreri, the causal agent of frosty pod rot, is important for the generation of stable disease-tolerant clones. A comparative view was obtained of transcript populations of infected pods from two susceptible and two tolerant clo...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12126

    authors: Ali SS,Melnick RL,Crozier J,Phillips-Mora W,Strem MD,Shao J,Zhang D,Sicher R,Meinhardt L,Bailey BA

    更新日期:2014-09-01 00:00:00

  • The signalling mucin Msb2 regulates surface sensing and host penetration via BMP1 MAP kinase signalling in Botrytis cinerea.

    abstract::Botrytis cinerea is a necrotrophic fungus that infects a wide range of fruit, vegetable and flower crops. Penetration of the host cuticle occurs via infection structures that are formed in response to appropriate plant surface signals. The differentiation of these structures requires a highly conserved mitogen-activat...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12234

    authors: Leroch M,Mueller N,Hinsenkamp I,Hahn M

    更新日期:2015-10-01 00:00:00

  • Detecting and differentiating Acremonium implicatum: developing a PCR-based method for an endophytic fungus associated with the genus Brachiaria.

    abstract::SUMMARY Brachiaria is a pan-tropical genus of grasses with about 100 species. The fungus Acremonium implicatum can develop an endophytic association that is mutually beneficial with Brachiaria species. We developed a polymerase chain reaction (PCR)-based method by first amplifying DNA from A. implicatum isolates using...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1046/j.1364-3703.2003.00157.x

    authors: Kelemu S,Dongyi H,Guixiu H,Takayama Y

    更新日期:2003-03-01 00:00:00

  • Sugar homeostasis mediated by cell wall invertase GRAIN INCOMPLETE FILLING 1 (GIF1) plays a role in pre-existing and induced defence in rice.

    abstract::Sugar metabolism and sugar signalling are not only critical for plant growth and development, but are also important for stress responses. However, how sugar homeostasis is involved in plant defence against pathogen attack in the model crop rice remains largely unknown. In this study, we observed that the grains of gi...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12078

    authors: Sun L,Yang DL,Kong Y,Chen Y,Li XZ,Zeng LJ,Li Q,Wang ET,He ZH

    更新日期:2014-02-01 00:00:00

  • Fusarium wilt (Fusarium oxysporum f. sp. vasinfectum) genes expressed during infection of cotton (Gossypium hirsutum)dagger.

    abstract::SUMMARY We sought to identify Fusarium oxysporum f. sp. vasinfectum (Fov) genes that may be associated with pathogenicity. Initially we utilized microarray and Q-PCR technology to identify Fov genes expressed in root and hypocotyl tissues during a compatible infection of cotton. We identified 218 fungal clones represe...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/j.1364-3703.2006.00327.x

    authors: McFadden HG,Wilson IW,Chapple RM,Dowd C

    更新日期:2006-03-01 00:00:00

  • The P2 of Wheat yellow mosaic virus rearranges the endoplasmic reticulum and recruits other viral proteins into replication-associated inclusion bodies.

    abstract::Viruses commonly modify host endomembranes to facilitate biological processes in the viral life cycle. Infection by viruses belonging to the genus Bymovirus (family Potyviridae) has long been known to induce the formation of large membranous inclusion bodies in host cells, but their assembly and biological roles are s...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12109

    authors: Sun L,Andika IB,Shen J,Yang D,Chen J

    更新日期:2014-06-01 00:00:00

  • The PCR amplification and characterization of entire Pseudomonas syringae hrp/hrc clusters.

    abstract::SUMMARY We describe the use of degenerate primers to amplify the core hrp/hrc region of P. syringae pv. phaseolicola NPS3121. 18 826 bp were amplified using long-range PCR, digested and shotgun sequenced. Sequence analysis finds a hypervariable region between the hrpU and hrpC operons, and indications of positive sele...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/j.1364-3703.2004.00212.x

    authors: Gropp SJ,Guttman DS

    更新日期:2004-03-01 00:00:00

  • Activation of PhoBR under phosphate-rich conditions reduces the virulence of Xanthomonas oryzae pv. oryzae.

    abstract::The two-component signal transduction system PhoBR regulates the adaptation to phosphate limitation and the virulence of many animal bacterial pathogens. However, PhoBR in phytopathogens has rarely been investigated. In this study, we found that PhoBR in Xanthomonas oryzae pv. oryzae (Xoo), the pathogen of rice bacter...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12680

    authors: Zheng D,Xue B,Shao Y,Yu H,Yao X,Ruan L

    更新日期:2018-09-01 00:00:00

  • Botrytis species: relentless necrotrophic thugs or endophytes gone rogue?

    abstract::Plant pathology has a long-standing tradition of classifying microbes as pathogens, endophytes or saprophytes. Lifestyles of pathogens are categorized as biotrophic, necrotrophic or hemibiotrophic. Botrytis species are considered by many to be archetypal examples of necrotrophic fungi, with B. cinerea being the most e...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章,评审

    doi:10.1111/mpp.12148

    authors: van Kan JA,Shaw MW,Grant-Downton RT

    更新日期:2014-12-01 00:00:00

  • Differential regulation of toxoflavin production and its role in the enhanced virulence of Burkholderia gladioli.

    abstract::Burkholderia gladioli is a causal agent of bacterial panicle blight and sheath/grain browning in rice in many countries. Many strains produce the yellow pigment toxoflavin, which is highly toxic to plants, fungi, animals and microorganisms. Although there have been several studies on the toxoflavin biosynthesis system...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12262

    authors: Lee J,Park J,Kim S,Park I,Seo YS

    更新日期:2016-01-01 00:00:00

  • From bacterial avirulence genes to effector functions via the hrp delivery system: an overview of 25 years of progress in our understanding of plant innate immunity.

    abstract::Cloning the first avirulence (avr) gene has led not only to a deeper understanding of gene-for-gene interactions in plant disease, but also to fundamental insights into the suppression of basal defences against microbial attack. This article (focusing on Pseudomonas syringae) charts the development of ideas and resear...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章,评审

    doi:10.1111/j.1364-3703.2009.00576.x

    authors: Mansfield JW

    更新日期:2009-11-01 00:00:00

  • Olive anthracnose: a yield- and oil quality-degrading disease caused by several species of Colletotrichum that differ in virulence, host preference and geographical distribution.

    abstract::Olive anthracnose causes fruit rot leading to its drop or mummification, resulting in yield losses and the degradation of oil quality. TAXONOMY AND DISTRIBUTION:The disease is caused by diverse species of Colletotrichum, mostly clustering in the C. acutatum species complex. Colletotrichum nymphaeae and C. godetiae ar...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12676

    authors: Talhinhas P,Loureiro A,Oliveira H

    更新日期:2018-03-08 00:00:00

  • Population genomics of an outbreak of the potato late blight pathogen, Phytophthora infestans, reveals both clonality and high genotypic diversity.

    abstract::An outbreak of the potato late blight pathogen Phytophthora infestans in Denmark was characterized in order to resolve the population structure and determine to what extent sexual reproduction was occurring. A standard set of microsatellite simple sequence repeats (SSRs) and single nucleotide polymorphism (SNP) marker...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12819

    authors: Maurice S,Montes MS,Nielsen BJ,Bødker L,Martin MD,Jønck CG,Kjøller R,Rosendahl S

    更新日期:2019-08-01 00:00:00

  • Molecular mechanisms that limit the costs of NLR-mediated resistance in plants.

    abstract::Crop diseases cause significant yield losses, and the use of resistant cultivars can effectively mitigate these losses and control many plant diseases. Most plant resistance (R) genes encode immune receptors composed of nucleotide-binding and leucine-rich repeat (NLR) domains. These proteins mediate the specific recog...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章,评审

    doi:10.1111/mpp.12723

    authors: Richard MMS,Gratias A,Meyers BC,Geffroy V

    更新日期:2018-11-01 00:00:00

  • Survival factor 1 contributes to the oxidative stress response and is required for full virulence of Sclerotinia sclerotiorum.

    abstract::Sclerotinia sclerotiorum is a devastating necrotrophic fungal pathogen that infects over 400 species of plants worldwide. Reactive oxygen species (ROS) modulations are critical for the pathogenic development of S. sclerotiorum. The fungus applies enzymatic and non-enzymatic antioxidants to cope with the oxidative stre...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12801

    authors: Yu Y,Du J,Wang Y,Zhang M,Huang Z,Cai J,Fang A,Yang Y,Qing L,Bi C,Cheng J

    更新日期:2019-07-01 00:00:00

  • Sources of target specificity associated with the recovery against Pea seed-borne mosaic virus infection mediated by RNA silencing in pea.

    abstract::SUMMARY Transgenic peas containing a copy of the Pea seed-borne mosaic virus (PSbMV) isolate DPD1 NIb sequence develop a 'recovery' phenotype when challenged with either the homologous (DPD1) or a heterologous (NY) PSbMV isolate. However, the specificity of the subsequent resistance differs with respect to the initiat...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/j.1364-3703.2004.00204.x

    authors: Van Den Boogaart T,Maule AJ,Davies JW,Lomonossoff GP

    更新日期:2004-01-01 00:00:00

  • De novo generation of Lettuce infectious yellows virus defective RNAs in protoplasts.

    abstract::Summary Lettuce infectious yellows virus (LIYV)-infected plants contain a heterogeneous population of defective RNAs (D RNAs) derived from LIYV genomic RNA 2. To partly address how LIYV D RNAs are generated, in vitro synthesized transcripts corresponding to the LIYV genomic RNAs 1 and 2 were inoculated to protoplasts,...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1046/j.1364-3703.2002.00125.x

    authors: Rubio L,Tian T,Yeh HH,Livieratos Y,Falk BW

    更新日期:2002-09-01 00:00:00

  • A novel sweet potato potyvirus open reading frame (ORF) is expressed via polymerase slippage and suppresses RNA silencing.

    abstract::The single-stranded, positive-sense RNA genome of viruses in the genus Potyvirus encodes a large polyprotein that is cleaved to yield 10 mature proteins. The first three cleavage products are P1, HCpro and P3. An additional short open reading frame (ORF), called pipo, overlaps the P3 region of the polyprotein ORF. Fou...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12366

    authors: Untiveros M,Olspert A,Artola K,Firth AE,Kreuze JF,Valkonen JP

    更新日期:2016-09-01 00:00:00

  • Comparison of transcript profiles in different life stages of the nematode Globodera pallida under different host potato genotypes.

    abstract::The potato cyst nematodes (PCNs) Globodera pallida and Globodera rostochiensis are important parasites of potato. PCNs undergo complex biotrophic interactions with their hosts that involve gene expression changes in both the nematode and the host plant. The aim of this study was to determine key genes that are differe...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/j.1364-3703.2012.00821.x

    authors: Palomares-Rius JE,Hedley PE,Cock PJ,Morris JA,Jones JT,Vovlas N,Blok V

    更新日期:2012-12-01 00:00:00

  • The TNL gene Rdr1 confers broad-spectrum resistance to Diplocarpon rosae.

    abstract::Black spot disease, which is caused by the ascomycete Diplocarpon rosae, is the most severe disease in field-grown roses in temperate regions and has been distributed worldwide, probably together with commercial cultivars. Here, we present data indicating that muRdr1A is the active Rdr1 gene, a single-dominant TIR-NBS...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12589

    authors: Menz I,Straube J,Linde M,Debener T

    更新日期:2018-05-01 00:00:00

  • Long-term protection against tobacco mosaic virus induced by the marine alga oligo-sulphated-galactan Poly-Ga in tobacco plants.

    abstract::In order to study the antiviral effect of the oligo-sulphated galactan Poly-Ga, the leaves of tobacco plants Xhanti(NN) were sprayed with water (control), with increasing concentrations of Poly-Ga, for increasing numbers of treatments or cultivated for increasing times after treatment. Control and treated plants were ...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/j.1364-3703.2010.00685.x

    authors: Vera J,Castro J,González A,Barrientos H,Matsuhiro B,Arce P,Zuñiga G,Moenne A

    更新日期:2011-06-01 00:00:00

  • Satellite DNA as a target for TaqMan real-time PCR detection of the pinewood nematode, Bursaphelenchus xylophilus.

    abstract::SUMMARY The pinewood nematode (PWN), Bursaphelenchus xylophilus, is a major pathogen of conifers, which impacts on forest health, natural ecosystem stability and international trade. As a consequence, it has been listed as a quarantine organism in Europe. A real-time PCR approach based on TaqMan chemistry was develope...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/j.1364-3703.2007.00434.x

    authors: François C,Castagnone C,Boonham N,Tomlinson J,Lawson R,Hockland S,Quill J,Vieira P,Mota M,Castagnone-Sereno P

    更新日期:2007-11-01 00:00:00

  • Agrobacterium T-DNA-encoded protein Atu6002 interferes with the host auxin response.

    abstract::Several genes in the Agrobacterium tumefaciens transferred (T)-DNA encode proteins that are involved in developmental alterations, leading to the formation of tumours in infected plants. We investigated the role of the protein encoded by the Atu6002 gene, the function of which is completely unknown. Atu6002 expression...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12088

    authors: Lacroix B,Gizatullina DI,Babst BA,Gifford AN,Citovsky V

    更新日期:2014-04-01 00:00:00

  • Piriformospora indica-a mutualistic basidiomycete with an exceptionally large plant host range.

    abstract::Piriformospora indica is a basidiomycete of the order Sebacinales, representing a model for the study of mutualistic symbiosis and, beyond that, the plant immune system. The fungus colonizes the roots of a wide range of vascular plants, increasing their growth, seed yield and adaptation to abiotic and biotic stresses....

    journal_title:Molecular plant pathology

    pub_type: 杂志文章,评审

    doi:10.1111/j.1364-3703.2011.00764.x

    authors: Qiang X,Weiss M,Kogel KH,Schäfer P

    更新日期:2012-06-01 00:00:00

  • Transcriptomic changes in Nicotiana benthamiana plants inoculated with the wild-type or an attenuated mutant of Tobacco vein banding mosaic virus.

    abstract::Tobacco vein banding mosaic virus (TVBMV) is a potyvirus which mainly infects solanaceous crops. The helper component proteinase (HCpro) of a potyvirus is an RNA silencing suppressor protein and determines the severity of disease symptoms caused by different potyviruses, including TVBMV. It has been shown that substit...

    journal_title:Molecular plant pathology

    pub_type: 杂志文章

    doi:10.1111/mpp.12471

    authors: Geng C,Wang HY,Liu J,Yan ZY,Tian YP,Yuan XF,Gao R,Li XD

    更新日期:2017-10-01 00:00:00