eprintid: 11685
rev_number: 10
eprint_status: archive
userid: 3170
dir: disk0/00/01/16/85
datestamp: 2020-12-31 04:55:15
lastmod: 2020-12-31 04:55:15
status_changed: 2020-12-31 04:55:15
type: article
metadata_visibility: show
creators_name: Song, X
creators_name: Sun, P
creators_name: Yuan, J
creators_name: Gong, K
creators_name: Li, N
creators_name: Meng, F
creators_name: Zhang, Z
creators_name: Li, X
creators_name: Hu, J
creators_name: Wang, J
creators_name: Yang, Q
creators_name: Jiao, B
creators_name: Nie, F
creators_name: Liu, T
creators_name: Chen, W
creators_name: Feng, S
creators_name: Pei, Q
creators_name: Yu, T
creators_name: Kang, X
creators_name: Zhao, W
creators_name: Cui, C
creators_name: Yu, Y
creators_name: Wu, T
creators_name: Shan, L
creators_name: Liu, M
creators_name: Qin, Z
creators_name: Lin, H
creators_name: Varshney, R K
creators_name: Li, X Q
creators_name: Paterson, A H
creators_name: Wang, X
icrisatcreators_name: Varshney, R K
affiliation: School of Life Sciences/Center for Genomics and Bio-computing, North China University of Science and Technology, Tangshan, Hebei, China
affiliation: National Key Laboratory for North China Crop Improvement and Regulation, Hebei Agriculture University, Baoding, Hebei, China
affiliation: School of Life Science and Technology and Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu, China
affiliation: Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, China
affiliation: College of Life Sciences, Shaanxi Normal University, Xi’an, China
affiliation: ICRISAT (Patancheru)
affiliation: Fredericton Research and Development Centre, Agriculture and Agri-Food Canada, Fredericton, New Brunswick, Canada
affiliation: Plant Genome Mapping Laboratory, University of Georgia, Athens, GA, USA
country: China
country: India
country: Canada
country: USA
title: The celery genome sequence reveals sequential paleo‐polyploidizations, karyotype evolution and resistance gene reduction in apiales
ispublished: pub
subjects: V11
subjects: s2.13
divisions: CRPS3
full_text_status: public
keywords: Celery genome, Paleopolyploidizations, Karyotype Reconstruction, Resistance gene, Coumarins.
note: This work was supported by the National Natural Science
Foundation of China (31801856 to X.S, 31371282,
2016YFD0101001 to X.W), the Hebei Province Higher Education
Youth Talents Program (BJ2018016 to X.S), China-Hebei 100
Scholars Supporting Project to X.W. (E2013100003), and the
China Postdoctoral Science Foundation (2020M673188 to X.S).
The genome sequencing, Hi-C sequencing and primary assembly
were performed with the help of Novogene.
abstract: Celery (Apium graveolens L. 2n = 2x = 22), a member of the Apiaceae family, is among the
most important and globally grown vegetables. Here, we report a high-quality genome sequence
assembly, anchored to 11 chromosomes, with total length of 3.33 Gb and N50 scaffold length
of 289.78 Mb. Most (92.91%) of the genome is composed of repetitive sequences, with
62.12% of 31 326 annotated genes confined to the terminal 20% of chromosomes.
Simultaneous bursts of shared long-terminal repeats (LTRs) in different Apiaceae plants suggest
inter-specific exchanges. Two ancestral polyploidizations were inferred, one shared by Apiales
taxa and the other confined to Apiaceae. We reconstructed 8 Apiales proto-chromosomes,
inferring their evolutionary trajectories from the eudicot common ancestor to extant plants.
Transcriptome sequencing in three tissues (roots, leaves and petioles), and varieties with
different-coloured petioles, revealed 4 and 2 key genes in pathways regulating anthocyanin and
coumarin biosynthesis, respectively. A remarkable paucity of NBS disease-resistant genes in
celery (62) and other Apiales was explained by extensive loss and limited production of these
genes during the last ~10 million years, raising questions about their biotic defence mechanisms
and motivating research into effects of chemicals, for example coumarins, that give off
distinctive odours. Celery genome sequencing and annotation facilitates further research into
important gene functions and breeding, and comparative genomic analyses in Apiales.
date: 2020-11
date_type: published
publication: Plant Biotechnology Journal (TSI)
publisher: Association of Applied Biologist
pagerange: 1-14
id_number: doi:10.1111/pbi.13499
refereed: TRUE
issn: 1467-7644
official_url: https://doi.org/10.1111/pbi.13499
related_url_url: https://scholar.google.com/scholar?hl=en&as_sdt=0%2C5&q=10.1111%2Fpbi.13499&btnG=
related_url_type: pub
citation:   Song, X and Sun, P and Yuan, J and Gong, K and Li, N and Meng, F and Zhang, Z and Li, X and Hu, J and Wang, J and Yang, Q and Jiao, B and Nie, F and Liu, T and Chen, W and Feng, S and Pei, Q and Yu, T and Kang, X and Zhao, W and Cui, C and Yu, Y and Wu, T and Shan, L and Liu, M and Qin, Z and Lin, H and Varshney, R K and Li, X Q and Paterson, A H and Wang, X  (2020) The celery genome sequence reveals sequential paleo‐polyploidizations, karyotype evolution and resistance gene reduction in apiales.  Plant Biotechnology Journal (TSI).  pp. 1-14.  ISSN 1467-7644     
document_url: http://oar.icrisat.org/11685/1/pbi.13499.pdf