Narusaka Y

References (4)

Title : Genome Sequence Resources for Four Phytopathogenic Fungi from the Colletotrichum orbiculare Species Complex - Gan_2019_Mol.Plant.Microbe.Interact_32_1088
Author(s) : Gan P , Tsushima A , Narusaka M , Narusaka Y , Takano Y , Kubo Y , Shirasu K
Ref : Mol Plant Microbe Interact , 32 :1088 , 2019
Abstract : Colletotrichum orbiculare species complex fungi are hemibiotrophic plant pathogens that cause anthracnose of field crops and weeds. Members of this group have genomes that are remarkably expanded relative to other Colletotrichum fungi and compartmentalized into AT-rich, gene-poor and GC-rich, gene-rich regions. Here, we present an updated version of the C. orbiculare genome, as well as draft genomes of three other members from the C. orbiculare species complex: the alfalfa pathogen C. trifolii, the prickly mallow pathogen C. sidae, and the burweed pathogen C. spinosum. The data reported here will be important for comparative genomics analyses to identify factors that play a role in the evolution and maintenance of the expanded, compartmentalized genomes of these fungi, which may contribute to their pathogenicity.
ESTHER : Gan_2019_Mol.Plant.Microbe.Interact_32_1088
PubMedSearch : Gan_2019_Mol.Plant.Microbe.Interact_32_1088
PubMedID: 30893003
Gene_locus related to this paper: color-a0a484fsm6

Title : Genus-Wide Comparative Genome Analyses of Colletotrichum Species Reveal Specific Gene Family Losses and Gains during Adaptation to Specific Infection Lifestyles - Gan_2016_Genome.Biol.Evol_8_1467
Author(s) : Gan P , Narusaka M , Kumakura N , Tsushima A , Takano Y , Narusaka Y , Shirasu K
Ref : Genome Biol Evol , 8 :1467 , 2016
Abstract : Members from Colletotrichum genus adopt a diverse range of lifestyles during infection of plants and represent a group of agriculturally devastating pathogens. In this study, we present the draft genome of Colletotrichum incanum from the spaethianum clade of Colletotrichum and the comparative analyses with five other Colletotrichum species from distinct lineages. We show that the C. incanum strain, originally isolated from Japanese daikon radish, is able to infect both eudicot plants, such as certain ecotypes of the eudicot Arabidopsis, and monocot plants, such as lily. Being closely related to Colletotrichum species both in the graminicola clade, whose members are restricted strictly to monocot hosts, and to the destructivum clade, whose members are mostly associated with dicot infections, C. incanum provides an interesting model system for comparative genomics to study how fungal pathogens adapt to monocot and dicot hosts. Genus-wide comparative genome analyses reveal that Colletotrichum species have tailored profiles of their carbohydrate-degrading enzymes according to their infection lifestyles. In addition, we show evidence that positive selection acting on secreted and nuclear localized proteins that are highly conserved may be important in adaptation to specific hosts or ecological niches.
ESTHER : Gan_2016_Genome.Biol.Evol_8_1467
PubMedSearch : Gan_2016_Genome.Biol.Evol_8_1467
PubMedID: 27189990
Gene_locus related to this paper: 9pezi-a0a167btm8 , 9pezi-a0a161vf36 , 9pezi-a0a162q6b7

Title : Comparative genomic and transcriptomic analyses reveal the hemibiotrophic stage shift of Colletotrichum fungi - Gan_2013_New.Phytol_197_1236
Author(s) : Gan P , Ikeda K , Irieda H , Narusaka M , O'Connell RJ , Narusaka Y , Takano Y , Kubo Y , Shirasu K
Ref : New Phytol , 197 :1236 , 2013
Abstract : Hemibiotrophic fungal plant pathogens represent a group of agronomically significant disease-causing agents that grow first on living tissue and then cause host death in later, necrotrophic growth. Among these, Colletotrichum spp. are devastating pathogens of many crops. Identifying expanded classes of genes in the genomes of phytopathogenic Colletotrichum, especially those associated with specific stages of hemibiotrophy, can provide insights on how these pathogens infect a large number of hosts. The genomes of Colletotrichum orbiculare, which infects cucurbits and Nicotiana benthamiana, and C. gloeosporioides, which infects a wide range of crops, were sequenced and analyzed, focusing on features with potential roles in pathogenicity. Regulation of C. orbiculare gene expression was investigated during infection of N. benthamiana using a custom microarray. Genes expanded in both genomes compared to other fungi included sequences encoding small, secreted proteins (SSPs), secondary metabolite synthesis genes, proteases and carbohydrate-degrading enzymes. Many SSP and secondary metabolite synthesis genes were upregulated during initial stages of host colonization, whereas the necrotrophic stage of growth is characterized by upregulation of sequences encoding degradative enzymes. Hemibiotrophy in C. orbiculare is characterized by distinct stage-specific gene expression profiles of expanded classes of potential pathogenicity genes.
ESTHER : Gan_2013_New.Phytol_197_1236
PubMedSearch : Gan_2013_New.Phytol_197_1236
PubMedID: 23252678
Gene_locus related to this paper: colgn-l2gid7 , colgc-t0jwq7 , color-n4vhc3 , colgn-l2fvr4 , colgc-t0jvv6 , color-n4vlu0 , colgn-l2fev9 , colgn-l2fqx6 , color-n4vrd6 , colgn-l2gbz2 , colgc-t0klg2 , color-n4uu89 , colgc-t0ky59 , colgc-t0jjv2 , colgn-l2fh91.1 , colgn-l2g0g1 , colgn-l2g1k8 , colgn-l2fgv1 , color-n4unl3 , color-n4vlc8 , colgc-t0lrv6 , colgn-l2gei8 , color-n4vlt8 , colgc-t0l215 , color-n4vxi8 , colgn-l2g4i7 , color-n4v192 , color-n4vv27 , color-n4urf4 , colgn-l2ftf7 , color-n4w1k2 , colgc-t0jzf9 , colgc-t0k098 , color-n4vcq6 , colgn-l2gi23 , color-n4umt6 , color-n4vw92 , colgn-l2g1w3 , colgn-l2fak9 , color-n4vnx2 , colgc-t0k3b9 , colgc-t0lm90 , colgn-l2ft30 , colgn-l2feh9 , colgn-l2ger6 , colgc-t0kbv4 , color-n4v6v1 , color-n4v5e0 , color-n4vlx2 , color-n4uld2 , colgn-l2g4s4 , color-n4v8d1 , colgn-l2fuy2 , colgn-l2fsz6 , color-n4vud4 , colgn-l2g8u3 , colgn-l2g267 , colgc-t0kkx8 , colgn-l2g459 , colgn-l2g5q8 , colgn-l2gj45 , color-n4vcr9 , colgn-l2fyf1 , colgc-t0jmt1 , color-n4v6r7 , color-n4va32 , color-n4vve7 , colgn-l2fks6 , color-n4ul94 , colgn-l2fdn5 , color-n4vpg5 , colgn-l2g9a0 , colgc-t0jwa2 , colgn-l2fm90 , color-n4vwk0 , colgn-l2gi91 , color-n4vmi0 , colgn-l2gae4 , color-n4veb3 , colgn-l2fua0 , color-n4v423 , colgn-l2fmp3 , color-n4usx1 , colgn-l2fmr3 , colgn-l2fsn3 , color-n4uyg9 , colgc-t0m975 , color-a0a484fsm6

Title : The genome of the mesopolyploid crop species Brassica rapa - Wang_2011_Nat.Genet_43_1035
Author(s) : Wang X , Wang H , Wang J , Sun R , Wu J , Liu S , Bai Y , Mun JH , Bancroft I , Cheng F , Huang S , Li X , Hua W , Freeling M , Pires JC , Paterson AH , Chalhoub B , Wang B , Hayward A , Sharpe AG , Park BS , Weisshaar B , Liu B , Li B , Tong C , Song C , Duran C , Peng C , Geng C , Koh C , Lin C , Edwards D , Mu D , Shen D , Soumpourou E , Li F , Fraser F , Conant G , Lassalle G , King GJ , Bonnema G , Tang H , Belcram H , Zhou H , Hirakawa H , Abe H , Guo H , Jin H , Parkin IA , Batley J , Kim JS , Just J , Li J , Xu J , Deng J , Kim JA , Yu J , Meng J , Min J , Poulain J , Hatakeyama K , Wu K , Wang L , Fang L , Trick M , Links MG , Zhao M , Jin M , Ramchiary N , Drou N , Berkman PJ , Cai Q , Huang Q , Li R , Tabata S , Cheng S , Zhang S , Sato S , Sun S , Kwon SJ , Choi SR , Lee TH , Fan W , Zhao X , Tan X , Xu X , Wang Y , Qiu Y , Yin Y , Li Y , Du Y , Liao Y , Lim Y , Narusaka Y , Wang Z , Li Z , Xiong Z , Zhang Z
Ref : Nat Genet , 43 :1035 , 2011
Abstract : We report the annotation and analysis of the draft genome sequence of Brassica rapa accession Chiifu-401-42, a Chinese cabbage. We modeled 41,174 protein coding genes in the B. rapa genome, which has undergone genome triplication. We used Arabidopsis thaliana as an outgroup for investigating the consequences of genome triplication, such as structural and functional evolution. The extent of gene loss (fractionation) among triplicated genome segments varies, with one of the three copies consistently retaining a disproportionately large fraction of the genes expected to have been present in its ancestor. Variation in the number of members of gene families present in the genome may contribute to the remarkable morphological plasticity of Brassica species. The B. rapa genome sequence provides an important resource for studying the evolution of polyploid genomes and underpins the genetic improvement of Brassica oil and vegetable crops.
ESTHER : Wang_2011_Nat.Genet_43_1035
PubMedSearch : Wang_2011_Nat.Genet_43_1035
PubMedID: 21873998
Gene_locus related to this paper: braol-Q8GTM3 , braol-Q8GTM4 , brarp-m4ei94 , brarp-m4c988 , brana-a0a078j4a9 , brana-a0a078e1m0 , brana-a0a078cd75 , brarp-m4dwa6 , brana-a0a078j4f0 , brana-a0a078cus4 , brana-a0a078f8c2 , brana-a0a078jql1 , brana-a0a078dgj3 , brana-a0a078hw50 , brana-a0a078cuu0 , brana-a0a078dfa9 , brana-a0a078ic91 , brarp-m4ctw3 , brana-a0a078ca65 , brana-a0a078ctc8 , brana-a0a078h021 , brana-a0a078jx23 , brarp-m4da84 , brarp-m4dwr7 , brana-a0a078dh94 , brana-a0a078h612 , brana-a0a078j2t3 , braol-a0a0d3dpb2 , braol-a0a0d3dx76 , brana-a0a078jxa8 , brana-a0a078i2k3 , brarp-m4cwq4 , brarp-m4dcj8 , brarp-m4eh17 , brarp-m4eey4 , brarp-m4dnj8 , brarp-m4ey83 , brarp-m4ey84