TreeBASE Search-Matrix 57865 of study 11918

@ARTICLE{TreeBASE2Ref20041, author = {Praveen Rahi and Riti Kapoor and J.P. W Young and Arvind Gulati}, title = {A genetic discontinuity in root-nodulating bacteria of cultivated pea in the Indian trans-Himalayas }, year = {2011}, keywords = {Biogeography, Evolutionary relationships, Indian trans-Himalayas, Rhizobium leguminosarum bv. viciae }, doi = {}, url = {http://}, pmid = {}, journal = {Molecular Ecology }, volume = {}, number = {}, pages = {}, abstract = {Evolutionary relationships of 120 root-nodulating bacteria isolated from the nodules of Pisum sativum cultivated at 22 different locations of the trans-Himalayan valleys of Lahaul and Spiti in the state of Himachal Pradesh of India were studied using 16S rRNA gene PCR-RFLP, ERIC-PCR, sequencing of 16S rRNA, atpD, recA, nodC and nifH genes, carbon-source utilization pattern (BIOLOG?), and whole-cell fatty acid profiling. The results demonstrated that all isolates belonged to Rhizobium leguminosarum biovar viciae (Rlv). Isolates from the two valleys were clearly separated on the basis of ERIC fingerprints, carbon-source utilization pattern, and whole-cell fatty acid methyl esters. Phylogenetic analysis of atpD, recA, nodC and nifH genes revealed a common Rlv sublineage in Spiti valley. Lahaul valley isolates were represented by 3 sequence types of atpD and recA genes, and four sequence types of nodC and nifH genes. Genotypes from the two valleys were completely distinct, except for two Lahaul isolates that shared nodC and nifH sequences with Spiti isolates but were otherwise more similar to other Lahaul isolates. Isolates from the two highest Spiti valley sites (above 4000m) had a distinctive whole-cell fatty acid profile. Spiti valley isolates are closely related to Rlv sublineages from Xinjiang and Shanxi provinces in China, while Lahaul valley isolates resemble cosmopolitan strains of the western world. The high mountain pass between these valleys represents a boundary between two distinct microbial populations. } }

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Matrix 57865 of Study 11918

Citation title: "A genetic discontinuity in root-nodulating bacteria of cultivated pea in the Indian trans-Himalayas ".

Study name: "A genetic discontinuity in root-nodulating bacteria of cultivated pea in the Indian trans-Himalayas ".

This study is part of submission 11918 (Status: Published).

Matrices

Title: Fig. S3C Dothiorella TUB2 alignment

Rows

Taxon Label	Row Segments	Characters 1?–30
Dothiorella acacicola CBS 141295	(none)	?????????????????????????CT-CC
Dothiorella acericola HNXX032	(none)	GGTTTGTTGCC-AAAACACACCCG-CT-CC
Dothiorella brevicollis CBS 130411	(none)	GGTTTGTTGCC-AAAACATATCCA-CT-CC
Dothiorella brevicollis CBS 130412	(none)	GGTTTGTTGCC-AAAACATATCCA-CT-CC
Dothiorella californica CBS 119635	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella californica CBS 141587	(none)	GGTTTGTTGCC-AGAACACGCCCG-CT-CC
Dothiorella capri amissi CBS 121763	(none)	GGTTTGTTGCC-AAAACACTCCGG-CT-CC
Dothiorella capri amissi CBS 121878	(none)	GGTTTGTTGCC-AAAACACTCCGG-CT-CC
Dothiorella casuarinae CBS 120688	(none)	GGTTTGTTGCC-AAAACACTCCCG-CT-CC
Dothiorella casuarinae CBS 120689	(none)	GGTTTGTTGCC-AAAACACTCCCG-CT-CC
Dothiorella casuarinae CBS 120690	(none)	GGTTTGTTGCC-AAAACACTCCCG-CT-CC
Dothiorella citricola CBS 124728	(none)	GGTTTGTTGCC-AAAACACACCTG-CT-CC
Dothiorella citricola CBS 124729	(none)	GGTTTGTTGCC-AAAACACACCTG-CT-CC
Dothiorella citricola CBS 130415	(none)	GGTTTGTTGCC-AAAACACACCTG-CT-CC
Dothiorella diospyricola CBS 145972	(none)	GGTTTGTTGCC-AAAACATATCCA-CT-CC
Dothiorella dulcispinae CBS 121764	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella dulcispinae CBS 130413	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella dulcispinae was oblonga CBS 121765	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella dulcispinae was oblonga CBS 121766	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella dulcispinae was oblonga CBS 130414	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella guttulata CBS 134886	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella guttulata CBS 134888	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella iberica CBS 113189	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella iberica CBS 115035	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella iberica CBS 115036	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella iberica CBS 115037	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella iberica CBS 115039	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella iberica CBS 115040	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella iberica CBS 115041	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella iberica CBS 121001	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella iberica CBS 130984	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella iberica CBS 133500	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella iberica PD257	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella iberica UCD1448SLO	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella iberica UCR DI3	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella iberica UCROK1227	(none)	??????????????????????????????
Dothiorella iberica UCROK1396	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella iranica CBS 124722	(none)	GGTTTGTTGCC-ATAACACATCCG-CTACC
Dothiorella italica CBS 115038	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella italica CBS 122805	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella italica CBS 122806	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella italica CBS 910.73	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella italica CPC 30616	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella italica CPC 33887	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella italica CPC 35506	(none)	?????GTTGCC-AAAACACGTCCG-CT-CC
Dothiorella italica CPC 35540	(none)	???????????-????????????-??-TC
Dothiorella lampangensis MFLUCC 18 0232	(none)	GGTTTGTTGCC-AAAACAC?TCCG-CT-CC
Dothiorella longicollis CBS 122066	(none)	GGTTTGTTGCC-AAAACATATCCA-CT-CC
Dothiorella longicollis CBS 122067	(none)	GGTTTGTTGCC-AAAACATATCCA-CT-CC
Dothiorella longicollis CBS 122068	(none)	GGTTTGTTGCC-AAAACATATCCA-CT-CC
Dothiorella mangifericola was rosulata CBS 121760	(none)	GGTTTGTTGCC-AAAACACACCCG-CT-CC
Dothiorella mangifericola was rosulata CBS 121761	(none)	GGTTTGTTGCC-AAAACACACCCG-CT-CC
Dothiorella moneti MUCC505	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella omnivora CBS 124716	(none)	GGTTTGTTGCC-AAACCACGTCCG-CT-CC
Dothiorella omnivora CBS 188.87	(none)	GGTTTGTTGCC-AAACCACGTCCG-CT-CC
Dothiorella parva CBS 124720	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella parva CBS 124721	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella parva CBS 134885	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella parva CBS 134887	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella plurivora CBS 124724	(none)	GGTTTGTTGCC-AAAACACACCCG-CT-CC
Dothiorella pretoriensis CBS 130404	(none)	GGTTTGTTGCC-AAAACACTCCCG-CT-CC
Dothiorella prunicola CBS 124723	(none)	GGTTTGTTGCC-GAAACACGCCCG-CT-CC
Dothiorella eriobotryae was rhamni CBS 145976	(none)	?????????????????????????????C
Dothiorella eriobotryae CBS 140852	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella santali MUCC509	(none)	GGTTTGTTGCC-AAAACACTCCCG-CT-CC
Dothiorella sarmentorum CBS 164.33	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella sarmentorum CPC 31043	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella sarmentorum IMI 63581b	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella sarmentorum was americana CBS 128309	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella sarmentorum was americana CBS 128310	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CC
Dothiorella sempervirentis CBS 124718	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella sempervirentis CBS 124719	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella sp. 1 CBS 121783	(none)	GGTTTGTTGCC-AAAACACTCCCG-CT-CC
Dothiorella sp. 1 CBS 121784	(none)	GGTTTGTTGCC-AAAACACTCCCG-CT-CC
Dothiorella sp. 1 CBS 121785	(none)	GGTTTGTTGCC-AAAACACTCCCG-CT-CC
Dothiorella striata CBS 124730	(none)	GGTTTGTTGCC-ATAACATAGCCG-CT-CC
Dothiorella striata CBS 124731	(none)	GGTTTGTTGCC-ATAACATAGCCG-CT-CC
Dothiorella striata was neclivorem DAR 80992	(none)	GGTTTGTTGCC-ATAACATAGCCG-CT-CC
Dothiorella symphoricarpicola CBS 135622	(none)	GGTTTGTTGCCAAAAACACGCCCG-CT-CC
Dothiorella symphoricarpicola CBS 135623	(none)	GGTTTGTTGCCAAAAACACGCCCG-CT-CC
Dothiorella symphoricarpicola CBS 135847	(none)	GGTTTGTTGCCAAAAACACGCCCG-CT-CC
Dothiorella symphoricarpicola CPC 30972	(none)	GGTTTGTTGCCAAAAACACGCCCG-CT-CC
Dothiorella symphoricarpicola CPC 30976	(none)	GGTTTGTTGCCAAAAACACGCCCG-CT-CC
Dothiorella symphoricarpicola CPC 31033	(none)	GGTTTGTTGCCAAAAACACGCCCG-CT-CC
Dothiorella symphoricarpicola CPC 33923	(none)	GGTTTGTTGCCAAAAACACGCCCG-CT-CC
Dothiorella tectonae MFLUCC 18 0382	(none)	GGTTTGTTGCC-AAAACAC?TCCG-CT-CC
Dothiorella thailandica CBS 133991	(none)	??????????????????????????????
Dothiorella thripsita CBS 125445	(none)	GGTTTGTTGCC-AAAACACGCCCG-CT-CG
Dothiorella ulmacea CBS 138855	(none)	GGTTTGTTGCC-AAAACACACCCG-CT-CC
Dothiorella ulmacea CBS 140005	(none)	GGTTTGTTGCC-AAAACACACCCG-CT-CC
Dothiorella ulmacea CBS 141414	(none)	GGTTTGTTGCC-AAAACACACCCG-CT-CC
Dothiorella uruguayensis CBS 124908	(none)	GGTTTGTTGCC-AAAACATAGCCG-CT-CC
Dothiorella vidmadera DAR 78992	(none)	GGTTTGTTGCC-AAAACACGTCCG-CT-CC
Dothiorella vinea gemmae CPC 29689	(none)	GGTTTGTTGCC-AAAACACACCCG-CT-CC
Dothiorella vinea gemmae DAR 81012	(none)	GGTTTGTTGCC-AAAACACACCCG-CT-CC
Dothiorella viticola CBS 112869	(none)	GGTTTGTTGCC-AAAACACACCCG-CT-CC
Dothiorella viticola CBS 117006	(none)	GGTTTGTTGCC-AAAACACACCCG-CT-CC
Dothiorella viticola CBS 117007	(none)	GGTTTGTTGCC-AAAACACACCCGCCT-CC
Dothiorella viticola CBS 117008	(none)	GGTTTGTTGCC-AAAACACACCCGCCT-CC
Dothiorella viticola CBS 117009	(none)	GGTTTGTTGCC-AAAACACACCCGCCT-CC
Dothiorella viticola CBS 120999	(none)	GGTTTGTTGCC-AAAACACACCCG-CT-CC
Dothiorella viticola CMW 37930	(none)	GGTTTGTTGCC-AAAACACACCCG-CT-CC
Dothiorella viticola CMW 37931	(none)	GGTTTGTTGCC-AAAACACACCCG-CT-CC
Dothiorella viticola CMW 37933	(none)	GGTTTGTTGCC-AAAACACACCCG-CT-CC
Dothiorella viticola CPC 33136	(none)	GGTTTGTTGCC-AAAACACACCCGCCT-CC
Dothiorella viticola CPC 33257	(none)	GGTTTGTTGCC-AAAACACACCCGCCT-CC
Dothiorella viticola was westralis DAR 80529	(none)	GGTTTGTTGCC-AAAACACACCCGCCT-CC
Dothiorella viticola was westralis WA10NO03	(none)	GGTTTGTTGCC-AAAACACACCCGCCT-CC
Neofusicoccum luteum CBS 121482	(none)	GGTTTGTTGCC-AAAACACTGCCG-CT-CC

Columns

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