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Chemogenomic Profiling of the Fungal Pathogen Candida albicans.

Author(s): Chen Y, Mallick J, Maqnas A, Sun Y, Choudhury BI, Côte P, Yan L, Ni TJ, Li Y, Zhang D, Rodríguez-Ortiz R, Lv QZ, Jiang YY, Whiteway M

Antimicrob Agents Chemother. 2018 02;62(2): Authors: Chen Y, Mallick J, Maqnas A, Sun Y, Choudhury BI, Côte P, Yan L, Ni TJ, Li Y, Zhang D, Rodríguez-Ortiz R, Lv QZ, Jiang YY, Whiteway M

Article GUID: 29203491
Evolutionary Transition of GAL Regulatory Circuit from Generalist to Specialist Function in Ascomycetes.

Author(s): Choudhury BI, Whiteway M

Trends Microbiol. 2018 08;26(8):692-702 Authors: Choudhury BI, Whiteway M

Article GUID: 29395731
Erratum for Chen et al., "Chemogenomic Profiling of the Fungal Pathogen Candida albicans".

Author(s): Chen Y, Mallick J, Maqnas A, Sun Y, Choudhury BI, Côte P, Yan L, Ni TJ, Li Y, Zhang D, Rodríguez-Ortiz R, Lv QZ, Jiang YY, Whiteway M...

Antimicrob Agents Chemother. 2018 04;62(4): Authors: Chen Y, Mallick J, Maqnas A, Sun Y, Choudhury BI, Côte P, Yan L, Ni TJ, Li Y, Zhang D, Rodríguez-Ortiz R, Lv QZ, Jiang YY, Whiteway M...

Article GUID: 29588354
Functional androdioecy in critically endangered Gymnocladus assamicus (Leguminosae) in the Eastern Himalayan Region of Northeast India.

Author(s): Choudhury BI, Khan ML, Dayanandan S

PLoS One. 2014;9(2):e87287 Authors: Choudhury BI, Khan ML, Dayanandan S

Article GUID: 24586267
Patterns of nucleotide diversity and phenotypes of two domestication related genes (OsC1 and Wx) in indigenous rice varieties in Northeast India.

Author(s): Choudhury BI, Khan ML, Dayanandan S

BMC Genet. 2014 Jun 16;15:71 Authors: Choudhury BI, Khan ML, Dayanandan S

Article GUID: 24935343
Genetic relatedness among indigenous rice varieties in the Eastern Himalayan region based on nucleotide sequences of the Waxy gene.

Author(s): Choudhury BI, Khan ML, Dayanandan S

BMC Res Notes. 2014 Dec 29;7:953 Authors: Choudhury BI, Khan ML, Dayanandan S

Article GUID: 25547027
Rewiring of the Ppr1 Zinc Cluster Transcription Factor from Purine Catabolism to Pyrimidine Biogenesis in the Saccharomycetaceae.

Author(s): Tebung WA, Choudhury BI, Tebbji F, Morschhäuser J, Whiteway M

Curr Biol. 2016 07 11;26(13):1677-1687 Authors: Tebung WA, Choudhury BI, Tebbji F, Morschhäuser J, Whiteway M

Article GUID: 27321996
Title:Genetic relatedness among indigenous rice varieties in the Eastern Himalayan region based on nucleotide sequences of the Waxy gene.
Authors:Choudhury BI,  Khan ML,  Dayanandan S
Link:https://www.ncbi.nlm.nih.gov/pubmed/25547027?dopt=Abstract
DOI:10.1186/1756-0500-7-953
Category:BMC Res Notes
PMID:25547027
Dept Affiliation: GENOMICS
1 Biology Department, Forest and Evolutionary Genomics Laboratory, and Centre for Structural and Functional Genomics, Concordia University, 7141 Sherbrooke St, West, Montreal, Quebec H4B 1R6, Canada. baharulchoudhury@gmail.com.

Description:

Genetic relatedness among indigenous rice varieties in the Eastern Himalayan region based on nucleotide sequences of the Waxy gene.

BMC Res Notes. 2014 Dec 29;7:953

Authors: Choudhury BI, Khan ML, Dayanandan S

Abstract

BACKGROUND: Indigenous rice varieties in the Eastern Himalayan region of Northeast India are traditionally classified into sali, boro and jum ecotypes based on geographical locality and the season of cultivation. In this study, we used DNA sequence data from the Waxy (Wx) gene to infer the genetic relatedness among indigenous rice varieties in Northeast India and to assess the genetic distinctiveness of ecotypes.

FINDINGS: The results of all three analyses (Bayesian, Maximum Parsimony and Neighbor Joining) were congruent and revealed two genetically distinct clusters of rice varieties in the region. The large group comprised several varieties of sali and boro ecotypes, and all agronomically improved varieties. The small group consisted of only traditionally cultivated indigenous rice varieties, which included one boro, few sali and all jum varieties. The fixation index analysis revealed a very low level of differentiation between sali and boro (F(ST)?=?0.005), moderate differentiation between sali and jum (F(ST)?=?0.108) and high differentiation between jum and boro (F(ST)?=?0.230) ecotypes.

CONCLUSION: The genetic relatedness analyses revealed that sali, boro and jum ecotypes are genetically heterogeneous, and the current classification based on cultivation type is not congruent with the genetic background of rice varieties. Indigenous rice varieties chosen from genetically distinct clusters could be used in breeding programs to improve genetic gain through heterosis, while maintaining high genetic diversity.

PMID: 25547027 [PubMed - indexed for MEDLINE]