文献类型： 外文期刊
第一作者： Xu, Xiaoming
作者： Xu, Xiaoming;Yin, Zekun;Yan, Lifeng;Wang, Hua;Liu, Weiguo;Yi, Huiguang;Schmidt, Bertil
作者机构：
期刊名称：BIOINFORMATICS （ 影响因子：5.8； 五年影响因子：8.3 ）
ISSN： 1367-4803
年卷期： 2023 年 39 卷 11 期
页码：
收录情况： SCI
摘要： We propose RabbitKSSD, a high-speed genome distance estimation tool. Specifically, we leverage load-balanced task partitioning, fast I/O, efficient intermediate result accesses, and high-performance data structures to improve overall efficiency. Our performance evaluation demonstrates that RabbitKSSD achieves speedups ranging from 5.7 x to 19.8 x over Kssd for the time-consuming sketch generation and distance computation on commonly used workstations. In addition, it significantly outperforms Mash, BinDash, and Dashing2. Moreover, RabbitKSSD can efficiently perform all-vs-all distance computation for all RefSeq complete bacterial genomes (455 GB in FASTA format) in just 2 min on a 64-core workstation.
分类号：
- 相关文献
作者其他论文 更多>>
-
The Mutations in RcMYB114 Affect Anthocyanin Glycoside Accumulation in Rose
作者：Li, Maofu;Yang, Yuan;Wang, Hua;Sun, Pei;Zhou, Shuting;Kang, Yanhui;Sun, Xiangyi;Jin, Min;Jin, Wanmei;Li, Maofu;Yang, Yuan;Wang, Hua;Sun, Pei;Zhou, Shuting;Kang, Yanhui;Sun, Xiangyi;Jin, Min;Jin, Wanmei;Li, Maofu;Wang, Hua;Sun, Pei;Zhou, Shuting;Kang, Yanhui;Sun, Xiangyi;Jin, Min;Jin, Wanmei;Yang, Yuan
关键词：rosa;
RcMYB114 gene; artificial mutation; protein interaction -
A lipoxygenase gene modulates jasmonate biosynthesis to enhance blast resistance in rice
作者：Wang, Lanlan;Deng, Fan;Gong, Xue;Wu, Gengwei;Zhang, Chi;Wang, Hua;Chen, Yumeng;Jin, Gaochen;Li, Ran;Deng, Fan
关键词：13-Lipoxygenase; jasmonic acid (JA); Magnaporthe oryzae; MYC2 transcription factor; rice; rice blast resistance
-
Full-Genome Analysis and Pathogenicity of a Novel Recombinant Field PRRSV-1 Strain Between Amervac-Like and NMEU09-1-Like Strains in China
作者：Wei, Chunhua;Huang, Wenlin;Yang, Yuan;Xie, Feimin;Fan, Kewei;Wang, Hua;Chen, Haoyu;Lan, Xin;Dai, Ailing;Liu, Jiankui;Wei, Chunhua;Xie, Feimin;Fan, Kewei;Dai, Ailing;Liu, Jiankui;Huang, Wenlin;Yang, Yuan;Chen, Haoyu;Luo, Manlin;Zhou, Xia
关键词：genetic characterization; novel strain; pathogenicity; PRRSV-1; recombination
-
Bacterial communities driving cabbage yield increases and pathogenic risks reduces following wastewater irrigation: Effects of nitrification inhibitors on different soil-vegetable systems
作者：Zhang, Manyun;Zhou, Minzhe;Wang, Hua;Ma, Bin;Zhou, Tangrong;Wang, Yan;Huang, Zhenrong;Tang, Wenhui;Chen, Falin;Zhao, Xinlin;Zhang, Manyun;Bai, Shahla Hosseini;Zhao, Benliang
关键词：Nitrification inhibitors; Rice-fish symbiosis wastewater; Potential pathogenicity; Bacterial community
-
MetaKSSD: boosting the scalability of the reference taxonomic marker database and the performance of metagenomic profiling using sketch operations
作者：Yi, Huiguang;Lu, Xiaoxin;Chang, Qing
关键词：
-
The Effect of Rhizophagus intraradices on Cadmium Uptake and OsNRAMP5 Gene Expression in Rice
作者：Bao, Xiaoqi;Zhang, Quan;Bao, Xiaoqi;Liu, Junli;Qiu, Gaoyang;Chen, Xiaodong;Zhang, Junbo;Guo, Bin;Wang, Hua
关键词：arbuscular mycorrhizal fungi; cadmium; uptake;
OsNRAMP5 ; rice -
Coordinated transcriptomic and metabolomic analyses reveal mechanisms involved in smut disease resistance in Rheum officinale Baill
作者：Yang, Yuying;Jiang, Xiaogang;Wang, Hua;Liu, Haihua;You, Jinwen;Zhang, Meide;Zhou, Wuxian;Duan, Yuqing;Luo, Yuan
关键词：Smut disease; Rheum officinale Baill.; Transcriptome; Metabolome; RoNPR1
