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计算不同基因序列的演化距离问题可以转换为寻找两个排列间的翻转距离问题,对于大部分实例来说,最小排序翻转序列是存在的.在探索基因重排空间问题上,获取最小翻转距离非常有意义.引入了两个引理并证明了引理,然后描述了FDSR算法,最后分析了算法的效率并得出了结论. 相似文献
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Dong-Dong Wu Cui-Ping Yang Ming-Shan Wang Kun-Zhe Dong Da-Wei Yan Zi-Qian Hao Song-Qing Fan Shu-Zhou Chu Qiu-Shuo Shen Li-Ping Jiang Yan Li Lin Zeng He-Qun Liu Hai-Bing Xie Yun-Fei Ma Xiao-Yan Kong Shu-Li Yang Xin-Xing Dong Ali Esmailizadeh David M Irwin Xiao Xiao Ming Li Yang Dong Wen Wang Peng Shi Hai-Peng Li Yue-Hui Ma Xiao Gou Yong-Bin Chen Ya-Ping Zhang 《国家科学评论(英文版)》2020,7(6):952
Abundant and diverse domestic mammals living on the Tibetan Plateau provide useful materials for investigating adaptive evolution and genetic convergence. Here, we used 327 genomes from horses, sheep, goats, cattle, pigs and dogs living at both high and low altitudes, including 73 genomes generated for this study, to disentangle the genetic mechanisms underlying local adaptation of domestic mammals. Although molecular convergence is comparatively rare at the DNA sequence level, we found convergent signature of positive selection at the gene level, particularly the EPAS1 gene in these Tibetan domestic mammals. We also reported a potential function in response to hypoxia for the gene C10orf67, which underwent positive selection in three of the domestic mammals. Our data provide an insight into adaptive evolution of high-altitude domestic mammals, and should facilitate the search for additional novel genes involved in the hypoxia response pathway. 相似文献
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Xier Luo Yu Zhou Bing Zhang Yi Zhang Xiaobo Wang Tong Feng Zhipeng Li Kuiqing Cui Zhiqiang Wang Chan Luo Hui Li Yanfei Deng Fenghua Lu Jianlin Han Yongwang Miao Huaming Mao Xiaoyan Yi Cheng Ai Shigang Wu Alun Li Zhichao Wu Zijun Zhuo Do Da Giang Bikash Mitra Mohammad Farhad Vahidi Shahid Mansoor Sahar Ahmed Al-Bayatti Eka Meutia Sari Neena Amatya Gorkhali Sigit Prastowo Laiba Shafique Guoyou Ye Qian Qian Baoshan Chen Deshun Shi Jue Ruan Qingyou Liu 《国家科学评论(英文版)》2020,7(3):686
Domesticated buffaloes have been integral to rice-paddy agro-ecosystems for millennia, yet relatively little is known about the buffalo genomics. Here, we sequenced and assembled reference genomes for both swamp and river buffaloes and we re-sequenced 230 individuals (132 swamp buffaloes and 98 river buffaloes) sampled from across Asia and Europe. Beyond the many actionable insights that our study revealed about the domestication, basic physiology and breeding of buffalo, we made the striking discovery that the divergent domestication traits between swamp and river buffaloes can be explained with recent selections of genes on social behavior, digestion metabolism, strengths and milk production. 相似文献
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Yanhua Qu Chunhai Chen Ying Xiong Huishang She Yong E Zhang Yalin Cheng Shane DuBay Dongming Li Per G P Ericson Yan Hao Hongyuan Wang Hongfeng Zhao Gang Song Hailin Zhang Ting Yang Chi Zhang Liping Liang Tianyu Wu Jinyang Zhao Qiang Gao Weiwei Zhai Fumin Lei 《国家科学评论(英文版)》2020,7(1):113
Known as the ‘third polar region’, the Qinghai-Tibet Plateau represents one of the harshest highland environments in the world and yet a number of organisms thrive there. Previous studies of birds, animals and humans have focused on well-differentiated populations in later stages of phenotypic divergence. The adaptive processes during the initial phase of highland adaptation remain poorly understood. We studied a human commensal, the Eurasian Tree Sparrow, which has followed human agriculture to the Qinghai-Tibet Plateau. Despite strong phenotypic differentiation at multiple levels, in particular in muscle-related phenotypes, highland and lowland populations show shallow genomic divergence and the colonization event occurred within the past few thousand years. In a one-month acclimation experiment investigating phenotypic plasticity, we exposed adult lowland tree sparrows to a hypoxic environment and did not observe muscle changes. Through population genetic analyses, we identified a signature of polygenic adaptation, whereby shifts in allele frequencies are spread across multiple loci, many of which are associated with muscle-related processes. Our results reveal a case of positive selection in which polygenic adaptation appears to drive rapid phenotypic evolution, shedding light on early stages of adaptive evolution to a novel environment. 相似文献
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Lu-jun CHAI Xia-wei JIANG Fan ZHANG Bei-wen ZHENG Fu-chang SHU Zheng-liang WANG Qing-feng CUI Han-ping DONG Zhong-zhi ZHANG Du-jie HOU Yue-hui SHE 《Journal of Zhejiang University. Science. B》2015,16(10):865-874
In this study, we isolated an environmental clone of Ochrobactrum intermedium, strain 2745-2, from the formation water of Changqing oilfield in Shanxi, China, which can degrade crude oil. Strain 2745-2 is aerobic and rod-shaped with optimum growth at 42 °C and pH 5.5. We sequenced the genome and found a single chromosome of 4 800 175 bp, with a G+C content of 57.63%. Sixty RNAs and 4737 protein-coding genes were identified: many of the genes are responsible for the degradation, emulsification, and metabolizing of crude oil. A comparative genomic analysis with related clinical strains (M86, 229E, and LMG3301T) showed that genes involved in virulence, disease, defense, phages, prophages, transposable elements, plasmids, and antibiotic resistance are also present in strain 2745-2. 相似文献
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本文主要研究基因无方向的基因组重排的反转排序问题.本文算法基于断点图的概念,给出一个时间复杂性为O(maxb3(π),nb(π)),空间复杂性为O(n)的求解近似最优解的算法,其中n为基因组中基因个数,π=(π1,π2,...πn)表示n个基因的一种排列,b(π)表示排列π中的断点数.数据试验的结果表明,该近似算法可以求得较好的结果. 相似文献
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The clustered regularly interspaced short palindromic repeat (CRISPR)-associated protein 9 (Cas9) genome editing system is a powerful tool for targeted gene modifications in a wide range of species, including plants. Over the last few years, this system has revolutionized the way scientists perform genetic studies and crop breeding, due to its simplicity, flexibility, consistency and high efficiency. Considerable progress has been made in optimizing CRISPR/Cas9 systems in plants, particularly for targeted gene mutagenesis. However, there are still a number of important challenges ahead, including methods for the efficient delivery of CRISPR and other editing tools to most plants, and more effective strategies for sequence knock-ins and replacements. We provide our viewpoint on the goals, potential concerns and future challenges for the development and application of plant genome editing tools. 相似文献
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侯勇 《中国科技资源导刊 (中国信息导报)》2017,(4):7-11
首先介绍生物研究大数据概念及其开放与共享现状,认为生物研究大数据开放与共享对科学研究具有促进
的作用。然后针对生物研究大数据开放与共享的困难,以GigaScience为例探讨了生物研究大数据开放共享具体研究与
做法。最后针对生物研究大数据开放与共享面临的技术挑战,提出了进一步的发展建议,以推动生物研究大数据开放
与共享。 相似文献
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