Chromosome-level genome assembly of Fragaria pentaphylla using PacBio and Hi-C technologies
文献类型： 外文期刊
作者： Sun, Rui 1 ; Li, Shuangtao 1 ; Chang, Linlin 1 ; Dong, Jing 1 ; Zhong, Chuanfei 1 ; Zhang, Hongli 1 ; Wei, Lingzhi 1 ; Gao, Yongshun 1 ; Wang, Guixia 1 ; Zhang, Yuntao 1 ; Sun, Jian 1 ;
作者机构： 1.Beijing Acad Agr & Forestry Sci, Inst Forestry & Pomol, Beijing, Peoples R China
2.Beijing Engn Res Ctr Strawberry, Beijing, Peoples R China
3.Minist Agr, Key Lab Biol & Genet Improvement Hort Crops North, Beijing, Peoples R China
关键词： chromosomal assembly; Fragaria pentaphylla; gene annotation; Hi-C; PacBio
期刊名称：FRONTIERS IN GENETICS （ 影响因子：4.772； 五年影响因子：4.933 ）
ISSN：
年卷期： 2022 年 13 卷
页码：
收录情况： SCI
摘要： Fragaria pentaphylla, a wild diploid quinquefoliolate species of Fragaria, is native to Southwest China. It has two morphs of red and white fruit color in nature and has characteristics of unique fragrance and resistance, which made it not only a valuable breeding material but also a potential model plant for molecular function researches. Here, we generate a high-quality chromosome-level genome assembly of a F. pentaphylla accession, BAAFS-FP039 employing a combination of PacBio Long-Read Sequencing, Illumina Short-Read Sequencing, and Hi-C Sequencing. The assembled genome contained 256.74 Mb and a contig N50 length of 32.38 Mb, accounting for 99.9% of the estimated genome (256.77 Mb). Based on Hi-C data, seven pseudo-chromosomes of F. pentaphylla-FP039 genome were assembled, covering 99.39% of the genome assembly. The genome was composed of 44.61% repetitive sequences and 29,623 protein-coding genes, 97.62% of protein-coding genes could be functionally annotated. Phylogenetic and chromosome syntenic analysis revealed that F. pentaphylla-FP039 was closely related to F. nubicola. This high-quality genome could provides fundamental molecular resources for evolutionary studies, breeding efforts, and exploring the unique biological characteristics of F. pentaphylla.
- 相关文献
作者其他论文 更多>>
-
The Fitting of the OJ Phase of Chlorophyll Fluorescence Induction Based on an Analytical Solution and Its Application in Urban Heat Island Research
作者：Shi, Tongxin;Fan, Dayong;Xu, Chengyang;Feng, Fei;Zheng, Guoming;Zhong, Chuanfei;Chow, Wah Soon
关键词：connectivity among PSII complexes; differential equation of Q(A) reduction kinetics; functional absorption cross-section of PSII; heat stability of PSII; UHI
-
Biochar immobilized plant growth-promoting rhizobacteria enhanced the physicochemical properties, agronomic characters and microbial communities during lettuce seedling
作者：Guan, Ti-Kun;Wang, Qiu-Ying;Li, Jia-Shu;Yan, Hui-Wen;Chen, Qing-Jun;Liu, Chao-Jie;Han, Ying-Yan;Zhang, Guo-Qing;Wang, Qiu-Ying;Sun, Jian;Zou, Ya-Jie
关键词：spent mushroom substrate; biochar; plant growth-promoting rhizobacteria; microbial community; lettuce seedling
-
FvWRKY50 is an important gene that regulates both vegetative growth and reproductive growth in strawberry
作者：Chen, Yating;Liu, Liping;Feng, Qianqian;Liu, Chuang;Bao, Yujuan;Zhang, Nan;Sun, Ronghui;Yin, Zhaonan;Zhong, Chuanfei;Li, Qian;Li, Bingbing;Zhong, Chuanfei;Wang, Yuanhua;Wang, Yuanhua
关键词：
-
Dissipation and Dietary Risk Assessment of Prochloraz in Strawberries under Greenhouse Conditions
作者：Wang, Hui;Liu, Qingju;Li, Cheng;Luan, Yunxia;Sun, Jian
关键词：dissipation; metabolites; prochloraz; risk assessment; strawberry
-
Tracking and Counting of Tomato at Different Growth Period Using an Improving YOLO-Deepsort Network for Inspection Robot
作者：Ge, Yuhao;Lin, Sen;Zhang, Yunhe;Li, Zuolin;Cheng, Hongtai;Qi, Xiangyu;Wu, Zedong;Lin, Sen;Zhang, Yunhe;Dong, Jing;Shao, Shanshan;Zhang, Jin
关键词：facility agriculture; deep learning; lightweight optimization; yield forecast; object tracking; tomato
-
Removal of the main inflorescence to induce reflowering of loquat
作者：Yuan, Yuan;Jiang, Yuanyuan;Peng, Jiangrong;Li, Wenkun;Zhang, Zhike;Gao, Yongshun;Lin, Shunquan;Jiang, Yuanyuan;Han, Zhiqiang;Cao, Yunpeng;Shahid, Muhammad Qasim;Gao, Yongshun;Gao, Yongshun
关键词：Eriobotrya japonica; Reflowering; Flowering time; Cutting; Production cycle
-
Genome-Wide Analysis of Ascorbic Acid Metabolism Related Genes in Fragaria x ananassa and Its Expression Pattern Analysis in Strawberry Fruits
作者：Liu, Huabo;Wei, Lingzhi;Ni, Yang;Chang, Linlin;Dong, Jing;Zhong, Chuanfei;Sun, Rui;Li, Shuangtao;Xiong, Rong;Wang, Guixia;Sun, Jian;Zhang, Yuntao;Gao, Yongshun;Liu, Huabo;Wei, Lingzhi;Ni, Yang;Chang, Linlin;Dong, Jing;Zhong, Chuanfei;Sun, Rui;Li, Shuangtao;Xiong, Rong;Wang, Guixia;Sun, Jian;Zhang, Yuntao;Gao, Yongshun;Liu, Huabo;Wei, Lingzhi;Chang, Linlin;Dong, Jing;Zhong, Chuanfei;Sun, Rui;Li, Shuangtao;Wang, Guixia;Sun, Jian;Zhang, Yuntao;Gao, Yongshun;Ni, Yang;Xiong, Rong
关键词：Fragaria x ananassa; ascorbic acid biosynthesis; genome-wide analysis; AKR; expression pattern
