TreeBASE Search-Matrices for study 25647

@ARTICLE{TreeBASE2Ref30364, author = {Fatemeh Khodadi and Jonathan B Gonzalez and Phillip L Martin and Emily Giroux and Guillaume J Bilodeau and Kari A Peter and Vinson P Doyle and Srdan G Acimovic}, title = {Identification and characterization of Colletotrichum species causing apple bitter rot in New York and description of C. novaboracense sp. nov.}, year = {2020}, keywords = {Phylogenetics, Bitter rot, Apple, Colletotrichum spp., C. chrysophilum, C. noveboracense sp. nov., C. fructicola, C. fioriniae}, doi = {10.1038/s41598-020-66761-9}, url = {}, pmid = {}, journal = {Scientific Reports}, volume = {10}, number = {11043}, pages = {1--19}, abstract = {Apple bitter rot caused by Colletotrichum species is a growing problem worldwide. Colletotrichum spp. are economically important but taxonomically un-resolved. Identification of Colletotrichum spp. is critical due to potential species-level differences in pathogenicity-related characteristics. A 400-isolate collection from NewYork apple orchards were morphologically assorted to two groups, C. acutatum species complex (CASC) and C. gloeosporioides species complex (CGSC). A sub-sample of 44 representative isolates, spanning the geographical distribution and apple varieties, were assigned to species based on multi-locus phylogenetic analyses of nrITS, GAPDH and TUB2 for CASC, and ITS, GAPDH, CAL, ACT, TUB2, APN2, ApMat and GS genes for CGSC. The dominant species was C. fioriniae, followed by C. chrysophilum and a novel species, C. noveboracense, described in this study. This study represents the first report of C. chrysophilum and C. noveboracense as pathogens of apple. We assessed the enzyme activity and fungicide sensitivity for isolates identified in NewYork. All isolates showed amylolytic, cellulolytic and lipolytic, but not proteolytic activity. C. chrysophilum showed the highest cellulase and the lowest lipase activity, while C. noveboracense had the highest amylase activity. Fungicide assays showed that C. fioriniae was sensitive to benzovindiflupyr and thiabendazole, while C. chrysophilum and C. noveboracense were sensitive to fludioxonil, pyraclostrobin and difenoconazole. All species were pathogenic on apple fruit with varying lesion sizes. Our findings of differing pathogenicity- related characteristics among the three species demonstrate the importance of accurate species identification for any downstream investigations of Colletotrichum spp. in major apple growing regions.} }

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Matrices for Study 25647

Citation title: "Identification and characterization of Colletotrichum species causing apple bitter rot in New York and description of C. novaboracense sp. nov.".

Study name: "Identification and characterization of Colletotrichum species causing apple bitter rot in New York and description of C. novaboracense sp. nov.".

This study is part of submission 25647 (Status: Published).

Matrices

ID	Matrix Title	Description	Data type	NTAX	NCHAR	Taxa
M52980	Colletotrichum gloeosporioides complex b-tubulin (Tub2) phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Colletotrichum gloeosporioides complex b-tubulin (Tub2) phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Nucleic Acid	178	694	View Taxa
M52975	Colletotrichum gloeosporioides complex GAPDH gene phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Colletotrichum gloeosporioides complex GAPDH gene phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Nucleic Acid	174	262	View Taxa
M52968	Colletotrichum gloeosporioides complex actin gene phylogeny	Colletotrichum gloeosporioides complex actin gene phylogeny	Nucleic Acid	175	244	View Taxa
M52974	Colletotrichum gloeosporioides complex calmodulin gene phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Colletotrichum gloeosporioides complex calmodulin gene phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Nucleic Acid	166	729	View Taxa
M52972	Colletotrichum gloeosporioides complex apn2gene phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Colletotrichum gloeosporioides complex apn2gene phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Nucleic Acid	85	763	View Taxa
M52978	Colletotrichum gloeosporioides complex ITS phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Colletotrichum gloeosporioides complex ITS phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Nucleic Acid	201	547	View Taxa
M52983	Colletotrichum genus ITS phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Colletotrichum genus ITS phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Nucleic Acid	74	525	View Taxa
M52981	Colletotrichum acutatum complex multigene phylogeny (ITS,GAPDH,TUB2) ML and Bayesian support concatenated and mapped onto ML best tree	Colletotrichum acutatum complex multigene phylogeny (ITS,GAPDH,TUB2) ML and Bayesian support concatenated and mapped onto ML best tree	Nucleic Acid	85	1278	View Taxa
M55324	Colletotrichum gloeosporioides complex Multigene phylogeny Code to upload for Multilocus analysis	Colletotrichum gloeosporioides complex Multigene phylogeny Code to upload for Multilocus analysis	Nucleic Acid	201	4890	View Taxa
M52977	Colletotrichum gloeosporioides complex glutamine synthase (GS) gene phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Colletotrichum gloeosporioides complex glutamine synthase (GS) gene phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Nucleic Acid	137	859	View Taxa
M55323	Colletotrichum gloeosporioides complex apmat gene phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Colletotrichum gloeosporioides complex apmat gene phylogeny ML and Bayesian support concatenated and mapped onto ML best tree	Nucleic Acid	150	792	View Taxa