Results 61 to 70 of about 4,666,723 (353)

Allele-aware chromosome-level genome assembly and efficient transgene-free genome editing for the autotetraploid cultivated alfalfa

Nature Communications, 2020
Artificially improving traits of cultivated alfalfa (Medicago sativa L.), one of the most important forage crops, is challenging due to the lack of a reference genome and an efficient genome editing protocol, which mainly result from its autotetraploidy ...
Hai-Tao Chen, Yan Zeng, Yong-Zhi Yang, Ling-Li Huang, Bolin Tang, He Zhang, Fei Hao, Wei Liu, You-Han Li, Yanbin Liu, Xiaoshuang Zhang, Ru Zhang, Ye-Sheng Zhang, Yongxin Li, Kun Wang, Hua He, Zhongkai Wang, G. Fan, Hui Yang, Ai-Ke Bao, Z. Shang, Jiang-Hua Chen, Wen Wang, Q. Qiu   +23 more
semanticscholar   +1 more source

Improved genome assembly and pan‐genome provide key insights into eggplant domestication and breeding

The Plant Journal, 2021
Summary Eggplant (Solanum melongena L.) is an important horticultural crop and one of the most widely grown vegetables from the Solanaceae family. It was domesticated from a wild, prickly progenitor carrying small, round, non‐anthocyanic fruits.
L. Barchi, M. Rabanus-Wallace, J. Prohens, L. Toppino, S. Padmarasu, E. Portis, G. Rotino, N. Stein, S. Lanteri, G. Giuliano   +9 more
semanticscholar   +1 more source

gymnome-assembly: OpenAI Environments for Genome Assembly

, 2023
<p>OpenAI Environments to simulate genome assemblies. These environments are described in the paper "<em>A step toward a reinforcement learning de novo genome assembler</em>".
kriowloo
core   +1 more source

Chromosome-scale and haplotype-resolved genome assembly of a tetraploid potato cultivar

Nature Genetics, 2021
Potato is the most widely produced tuber crop worldwide. However, reconstructing the four haplotypes of its autotetraploid genome remained an unsolved challenge.
He-Quan Sun, Wen-Biao Jiao, K. Krause, J. A. Campoy, Manisha Goel, Kat Folz-Donahue, C. Kukat, B. Huettel, K. Schneeberger   +8 more
semanticscholar   +1 more source

De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds [PDF]

Science, 2016
Hi-C for mosquito genomes Most genomes sequenced today are determined through the generation of short sequenced bits of DNA that are computationally pieced together like a jigsaw puzzle. This has resulted in the need for funds and additional data to fill
Olga Dudchenko, S. Batra, A. Omer, Sarah K. Nyquist, Marie Hoeger, Neva C. Durand, M. Shamim, Ido Machol, E. Lander, A. P. Aiden, Erez Lieberman Aiden   +10 more
semanticscholar   +1 more source

Chromosome-level genome assembly of Ophiorrhiza pumila reveals the evolution of camptothecin biosynthesis

Nature Communications, 2021
Plant genomes remain highly fragmented and are often characterized by hundreds to thousands of assembly gaps. Here, we report chromosome-level reference and phased genome assembly of Ophiorrhiza pumila, a camptothecin-producing medicinal plant, through ...
A. Rai, H. Hirakawa, R. Nakabayashi, S. Kikuchi, Koki Hayashi, Megha Rai, Hiroshi Tsugawa, Taiki Nakaya, T. Mori, Hideki Nagasaki, Runa Fukushi, Y. Kusuya, Hiroki Takahashi, H. Uchiyama, A. Toyoda, S. Hikosaka, E. Goto, K. Saito, M. Yamazaki   +18 more
semanticscholar   +1 more source

Pig genome sequence - analysis and publication strategy [PDF]

, 2010
Background The pig genome is being sequenced and characterised under the auspices of the Swine Genome Sequencing Consortium. The sequencing strategy followed a hybrid approach combining hierarchical shotgun sequencing of BAC clones and whole genome ...
Fredholm, M., Harlizius Barbara, Martien A M Groenen, Bolund, Lars, Rothschild Max F, Lee Kyung-Tai, Jane Rogers, Barbara Harlizius, Denis Milan, Groenen, M.A.M., Lee, Kyung-Tai, ?, ?, Uenishi, Hirohide, Jun Wang, Uenishi Hirohide, Churcher, C., Harlizius, Barbara, Lars Bolund, Lawrence B Schook, Alan L Archibald, Archibald Alan L, Fredholm, Merete, Groenen, Martien A. M., Schook, Lawrence B., Harlizius, B., Fredholm Merete, Archibald, A.L., The Swine Genome Sequencing Consortium,, Milan Denis, Bolund Lars, Groenen, Martien A.M., Rogers Jane, Wang Jun, Swine Genome Sequencing Consortium, Hirohide Uenishi, Groenen Martien AM, Rothschild, Max F., Bolund, L., Milan, Denis, Archibald, Alan L., Wang, Jun, Merete Fredholm, Kyung-Tai Lee, The Swine Genome Sequencing Consortium, -, Carol Churcher, Rogers, Jane, Churcher, Carol, Max F Rothschild, Schook Lawrence B, Churcher Carol   +49 more
core   +1 more source

MitoZ: a toolkit for animal mitochondrial genome assembly, annotation and visualization

Nucleic Acids Research, 2019
Mitochondrial genome (mitogenome) plays important roles in evolutionary and ecological studies. It becomes routine to utilize multiple genes on mitogenome or the entire mitogenomes to investigate phylogeny and biodiversity of focal groups with the onset ...
Guan-Liang Meng, Yi-Yuan Li, Chentao Yang, Shan-Lin Liu   +3 more
semanticscholar   +1 more source

LongStitch: high-quality genome assembly correction and scaffolding using long reads

BMC Bioinformatics, 2021
Generating high-quality de novo genome assemblies is foundational to the genomics study of model and non-model organisms. In recent years, long-read sequencing has greatly benefited genome assembly and scaffolding, a process by which assembled sequences ...
Lauren Coombe, Janet X. Li, Theodora Lo, J. Wong, Vladimir Nikolić, R. Warren, I. Birol   +6 more
semanticscholar   +1 more source

GTasm: a genome assembly method using graph transformers and HiFi reads

Frontiers in Genetics
MotivationGenome assembly aims to reconstruct the whole chromosome-scale genome sequence. Obtaining accurate and complete chromosome-scale genome sequence serve as an indispensable foundation for downstream genomics analyses.
Junwei Luo, Ziheng Zhang, Xinliang Ma, Chaokun Yan, Huimin Luo   +4 more
doaj   +1 more source