title: De Novo Assembly of Bitter Gourd Transcriptomes: Gene Expression and Sequence Variations in Gynoecious and Monoecious Lines.
abstract: Bitter gourd (Momordica charantia L.) is a nutritious vegetable crop of Asian origin, used as a medicinal herb in Indian and Chinese traditional medicine. Molecular breeding in bitter gourd is in its infancy, due to limited molecular resources, particularly on functional markers for traits such as gynoecy. We performed de novo transcriptome sequencing of bitter gourd using Illumina next-generation sequencer, from root, flower buds, stem and leaf samples of gynoecious line (Gy323) and a monoecious line (DRAR1). A total of 65,540 transcripts for Gy323 and 61,490 for DRAR1 were obtained. Comparisons revealed SNP and SSR variations between these lines and, identification of gene classes. Based on available transcripts we identified 80 WRKY transcription factors, several reported in responses to biotic and abiotic stresses; 56 ARF genes which play a pivotal role in auxin-regulated gene expression and development. The data presented will be useful in both functions studies and breeding programs in bitter gourd.
authors.affiliation: Division of Crop Improvement, Indian Institute of Vegetable Research, Post Bag No- 01, Jakhini (Shahanshahpur), Varanasi, Uttar Pradesh-221 305, India.
authors.forename: Anjali
authors.initials: A
authors.lastname: Shukla
authors.affiliation: Centre for Bioinformatics, School of Biotechnology, Banaras Hindu University, Varanasi, Uttar Pradesh 221 005, India.
authors.forename: V K
authors.initials: VK
authors.lastname: Singh
authors.affiliation: Division of Crop Improvement, Indian Institute of Vegetable Research, Post Bag No- 01, Jakhini (Shahanshahpur), Varanasi, Uttar Pradesh-221 305, India.
authors.forename: D R
authors.initials: DR
authors.lastname: Bharadwaj
authors.affiliation: Division of Crop Improvement, Indian Institute of Vegetable Research, Post Bag No- 01, Jakhini (Shahanshahpur), Varanasi, Uttar Pradesh-221 305, India.
authors.forename: Rajesh
authors.initials: R
authors.lastname: Kumar
authors.affiliation: Division of Crop Improvement, Indian Institute of Vegetable Research, Post Bag No- 01, Jakhini (Shahanshahpur), Varanasi, Uttar Pradesh-221 305, India.
authors.forename: Ashutosh
authors.initials: A
authors.lastname: Rai
authors.affiliation: Centre of Advanced Studies, Department of Botany, Banaras Hindu University, Varanasi, Uttar Pradesh 221 005, India.
authors.forename: A K
authors.initials: AK
authors.lastname: Rai
authors.affiliation: Genotypic Technology (P) Ltd., Bangalore 560094, Karnataka, India.
authors.forename: Raja
authors.initials: R
authors.lastname: Mugasimangalam
authors.affiliation: Genotypic Technology (P) Ltd., Bangalore 560094, Karnataka, India.
authors.forename: Sriram
authors.initials: S
authors.lastname: Parameswaran
authors.affiliation: Division of Crop Improvement, Indian Institute of Vegetable Research, Post Bag No- 01, Jakhini (Shahanshahpur), Varanasi, Uttar Pradesh-221 305, India.
authors.forename: Major
authors.initials: M
authors.lastname: Singh
authors.affiliation: Division of Crop Improvement, Indian Institute of Vegetable Research, Post Bag No- 01, Jakhini (Shahanshahpur), Varanasi, Uttar Pradesh-221 305, India.
authors.forename: P S
authors.initials: PS
authors.lastname: Naik
mesh_terms: D018506:Gene Expression Regulation, Plant; D017343:Genes, Plant; D014644:Genetic Variation; D059014:High-Throughput Nucleotide Sequencing; D008519:Medicine, Traditional; D018895:Microsatellite Repeats / Q000235:genetics; D029777:Momordica charantia / Q000235:genetics*; D010940:Plant Proteins / Q000235:genetics / Q000378:metabolism; D020641:Polymorphism, Single Nucleotide; D060888:Real-Time Polymerase Chain Reaction; D017423:Sequence Analysis, RNA; D014157:Transcription Factors / Q000235:genetics / Q000378:metabolism; D059467:Transcriptome
chemical_list: D010940:Plant Proteins; D014157:Transcription Factors