title: Comparative genomics of two jute species and insight into fibre biogenesis.
abstract: Jute (Corchorus sp.) is one of the most important sources of natural fibre, covering ∼80% of global bast fibre production1. Only Corchorus olitorius and Corchorus capsularis are commercially cultivated, though there are more than 100 Corchorus species2in the Malvaceae family. Here we describe high-quality draft genomes of these two species and their comparisons at the functional genomics level to support tailor-designed breeding. The assemblies cover 91.6% and 82.2% of the estimated genome sizes for C. olitorius and C. capsularis, respectively. In total, 37,031 C. olitorius and 30,096 C. capsularis genes are identified, and most of the genes are validated by cDNA and RNA-seq data. Analyses of clustered gene families and gene collinearity show that jute underwent shared whole-genome duplication ∼18.66 million years (Myr) ago prior to speciation. RNA expression analysis from isolated fibre cells reveals the key regulatory and structural genes involved in fibre formation. This work expands our understanding of the molecular basis of fibre formation laying the foundation for the genetic improvement of jute.
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Md Shahidul
authors.initials: MS
authors.lastname: Islam
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Advanced Studies in Genomics, Proteomics and Bioinformatics, University of Hawaii, Honolulu, Hawaii 96822, USA.
authors.forename: Jennifer A
authors.initials: JA
authors.lastname: Saito
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Emdadul Mannan
authors.initials: EM
authors.lastname: Emdad
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Borhan
authors.initials: B
authors.lastname: Ahmed
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Mohammad Moinul
authors.initials: MM
authors.lastname: Islam
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Abdul
authors.initials: A
authors.lastname: Halim
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Quazi Md Mosaddeque
authors.initials: QM
authors.lastname: Hossen
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Md Zakir
authors.initials: MZ
authors.lastname: Hossain
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Rasel
authors.initials: R
authors.lastname: Ahmed
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Md Sabbir
authors.initials: MS
authors.lastname: Hossain
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Shah Md Tamim
authors.initials: SM
authors.lastname: Kabir
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Md Sarwar Alam
authors.initials: MS
authors.lastname: Khan
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Md Mursalin
authors.initials: MM
authors.lastname: Khan
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Rajnee
authors.initials: R
authors.lastname: Hasan
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Nasima
authors.initials: N
authors.lastname: Aktar
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Ummay
authors.initials: U
authors.lastname: Honi
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Rahin
authors.initials: R
authors.lastname: Islam
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Md Mamunur
authors.initials: MM
authors.lastname: Rashid
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Advanced Studies in Genomics, Proteomics and Bioinformatics, University of Hawaii, Honolulu, Hawaii 96822, USA.
authors.forename: Xuehua
authors.identifier: 0000-0002-6367-848X
authors.initials: X
authors.lastname: Wan
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Advanced Studies in Genomics, Proteomics and Bioinformatics, University of Hawaii, Honolulu, Hawaii 96822, USA.
authors.forename: Shaobin
authors.initials: S
authors.lastname: Hou
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Taslima
authors.initials: T
authors.lastname: Haque
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Muhammad Shafiul
authors.initials: MS
authors.lastname: Azam
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Mahdi Muhammad
authors.identifier: 0000-0002-2823-3178
authors.initials: MM
authors.lastname: Moosa
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Sabrina M
authors.identifier: 0000-0003-2267-6813
authors.initials: SM
authors.lastname: Elias
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: A M Mahedi
authors.initials: AM
authors.lastname: Hasan
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Niaz
authors.initials: N
authors.lastname: Mahmood
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Md
authors.initials: M
authors.lastname: Shafiuddin
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Saima
authors.initials: S
authors.lastname: Shahid
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Nusrat Sharmeen
authors.initials: NS
authors.lastname: Shommu
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Sharmin
authors.initials: S
authors.lastname: Jahan
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|DataSoft Systems Bangladesh Limited, Dhaka 1207, Bangladesh.
authors.forename: Saroj
authors.initials: S
authors.lastname: Roy
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|DataSoft Systems Bangladesh Limited, Dhaka 1207, Bangladesh.
authors.forename: Amlan
authors.initials: A
authors.lastname: Chowdhury
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|DataSoft Systems Bangladesh Limited, Dhaka 1207, Bangladesh.
authors.forename: Ashikul Islam
authors.initials: AI
authors.lastname: Akhand
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|DataSoft Systems Bangladesh Limited, Dhaka 1207, Bangladesh.
authors.forename: Golam Morshad
authors.initials: GM
authors.lastname: Nisho
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|DataSoft Systems Bangladesh Limited, Dhaka 1207, Bangladesh.
authors.forename: Khaled Salah
authors.initials: KS
authors.lastname: Uddin
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|DataSoft Systems Bangladesh Limited, Dhaka 1207, Bangladesh.
authors.forename: Taposhi
authors.initials: T
authors.lastname: Rabeya
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|DataSoft Systems Bangladesh Limited, Dhaka 1207, Bangladesh.
authors.forename: S M Ekramul
authors.initials: SM
authors.lastname: Hoque
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|DataSoft Systems Bangladesh Limited, Dhaka 1207, Bangladesh.
authors.forename: Afsana Rahman
authors.initials: AR
authors.lastname: Snigdha
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|DataSoft Systems Bangladesh Limited, Dhaka 1207, Bangladesh.
authors.forename: Sarowar
authors.initials: S
authors.lastname: Mortoza
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|DataSoft Systems Bangladesh Limited, Dhaka 1207, Bangladesh.
authors.forename: Syed Abdul
authors.initials: SA
authors.lastname: Matin
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|DataSoft Systems Bangladesh Limited, Dhaka 1207, Bangladesh.
authors.forename: Md Kamrul
authors.initials: MK
authors.lastname: Islam
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|DataSoft Systems Bangladesh Limited, Dhaka 1207, Bangladesh.
authors.forename: M Z H
authors.initials: MZ
authors.lastname: Lashkar
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|DataSoft Systems Bangladesh Limited, Dhaka 1207, Bangladesh.
authors.forename: Mahboob
authors.initials: M
authors.lastname: Zaman
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Elsevier, Rockville, Maryland, Missouri 63043, USA.
authors.forename: Anton
authors.initials: A
authors.lastname: Yuryev
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Md Kamal
authors.initials: MK
authors.lastname: Uddin
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Department of Telecommunications, Dhaka 1208, Bangladesh.
authors.forename: Md Sharifur
authors.initials: MS
authors.lastname: Rahman
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Md Samiul
authors.initials: MS
authors.lastname: Haque
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.
authors.forename: Md Monjurul
authors.initials: MM
authors.lastname: Alam
authors.affiliation: Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Department of Biochemistry and Molecular Biology, University of Dhaka, Dhaka 1000, Bangladesh.
authors.forename: Haseena
authors.initials: H
authors.lastname: Khan
authors.affiliation: Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Jute Genome Project, Bangladesh Jute Research Institute, Dhaka 1207, Bangladesh.|Advanced Studies in Genomics, Proteomics and Bioinformatics, University of Hawaii, Honolulu, Hawaii 96822, USA.
authors.forename: Maqsudul
authors.initials: M
authors.lastname: Alam
mesh_terms: D032381:Corchorus / Q000235:genetics* / Q000378:metabolism; D017343:Genes, Plant; D018745:Genome, Plant; D023281:Genomics; D010802:Phylogeny; D000069600:Plant Breeding; D013045:Species Specificity