Results 31 to 40 of about 2,597,991 (390)

A complete telomere-to-telomere assembly of the maize genome

Nature Genetics, 2023
A complete telomere-to-telomere genome assembly of the maize Mo17 inbred line uncovers structural features of the highly complex maize genome. A complete telomere-to-telomere (T2T) finished genome has been the long pursuit of genomic research.
Jian Chen, Zijian Wang, Kaiwen Tan, Wei Huang, Junpeng Shi, Tong Li, Jiang Hu, Kai Wang, Chao Wang, Beibei Xin, Haiming Zhao, Weibin Song, M. Hufford, James c. Schnable, W. Jin, Jinsheng Lai   +15 more
semanticscholar   +1 more source

Single-molecule real-time sequencing combined with optical mapping yields completely finished fungal genome [PDF]

, 2015
Next-generation sequencing (NGS) technologies have increased the scalability, speed, and resolution of genomic sequencing and, thus, have revolutionized genomic studies.
Datema, Erwin, Faino, Luigi, Janssen, Antoine, Seidl, Michael F., Thomma, Bart P. H. J., Van Den Berg, Grardy C. M., Wittenberg, Alexander H. J.   +6 more
core   +2 more sources

BlobTools: Interrogation of genome assemblies [PDF]

F1000Research, 2017
The goal of many genome sequencing projects is to provide a complete representation of a target genome (or genomes) as underpinning data for further analyses. However, it can be problematic to identify which sequences in an assembly truly derive from the target genome(s) and which are derived from associated microbiome or contaminant organisms.
Dominik R. Laetsch, Mark L. Blaxter
openaire   +2 more sources

Chromosomal-level assembly of the Asian Seabass genome using long sequence reads and multi-layered scaffolding [PDF]

, 2016
We report here the ~670 Mb genome assembly of the Asian seabass (Lates calcarifer), a tropical marine teleost. We used long-read sequencing augmented by transcriptomics, optical and genetic mapping along with shared synteny from closely related fish ...
A Bairoch, A Christoffels, A Gurevich, A Kozomara, A McKenna, A Mitchell, A Morgulis, A Morgulis, A Pradhan, A Reiner, A Rodriguez-Mari, A Stamatakis, A Yates, AI Makunin, AJ Enright, AL Price, AL Price, Alan Christoffels, Aleksey Komissarov, Alexey Tupikin, Amy Hin Yan Tong, Andrey A. Yurchenko, AR Quinlan, B Langmead, B Star, C Berthelot, C Camacho, C Holt, C Wang, Chen-Shan Chin, CS Chin, D Brawand, D Ellinghaus, DA Benson, Darrell Green, DC Hardie, Dean R. Jerry, DH Alexander, Doreen Lau, DR Kelley, DRS-K, C. Jerry, E Casacuberta, E. TG Staristina, EW Myers, F Abascal, F Chen, F Yang, FC Jones, FJ Krsticevic, Fritz J. Sedlazeck, G Abrusan, G Benson, G Lin, G Marcais, G Parra, G Parra, G Tamazian, GH Yue, GH Yue, Gopikrishna Gopalapillai, Gregory W. Vurture, GS Slater, GT Valente, H Li, H Saiga, Heiner Kuhl, HH Kazazian Jr., I Braasch, Inna S. Kuznetsova, IS Kuznetsova, J Castresana, J Eid, J Huerta-Cepas, J Jurka, J Lin, James P. Drake, JG Ruby, JN Volff, JN Volff, Jolly M. Saju, Jonas Korlach, JS Chew, Junhui Jiang, K Howe, K Katoh, K Prufer, Kathiresan Purushothaman, KD Pruitt, KJ Hoff, KP Koepfli, KW Tzung, Lawrence S. Hon, László Orbán, M Blanchette, M Kanehisa, M Kasahara, M Kolmogorov, M Krzywinski, M Martin, M Schartl, M Tarailoâ-Graovac, M Tine, MA Larkin, Mario Jonas, Marsel Kabilov, Matthew Boitano, MB Stocks, MG Grabherr, Michael C. Schatz, MJ Chaisson, MR Friedlander, N Siegel, Natascha M. Thevasagayam, NM Thevasagayam, O Jaillon, O Otero, P Cingolani, P Ravi, P Schattner, P Shannon, P Xu, Paul M. Richardson, PE Warburton, Peter Van Heusden, R Kajitani, R Lorenz, R Luo, R Moore, R Pethiyagoda, R Poulter, R She, R Sreenivasan, Ramkumar Lachumanan, RD Ward, RD Ward, Richard Hall, RJ Roberts, S Chen, S Guindon, S Hoegg, S Hoegg, S Koren, S Vij, S Zhou, Sai Rama Sridatta Prakki, Sarah Mwangi, SF Altschul, Shubha Vij, Si Lok, Si Yan Ngoh, Siddharth Singh, Simon Moxon, SM Kielbasa, Sridhar Sivasubbu, Stanley Kimbung Mbandi, Stephen J. O'Brien, Stephen W. Turner, T Anantharaman, Tamás Dalmay, Tansyn H. Noble, TD Wu, TF DeLuca, TH O'Hare, TLO Davis, TS Anantharaman, Tyler Garvin, U Consortium, U Grimholt, V Douard, V Ravi, Vinaya Kumar Katneni, Vinod Scaria, Vladimir Trifonov, W Xue, WC Liew, Woei Chang Liew, WS Davidson, X Huang, X Zheng, XG Wang, XG Wang, Xueyan Shen, Y Guiguen, Y Han, Y Hashiguchi, Y Moriya, Y Sato, Y Sato, Y Sato, Z Lai, Ø Hammer   +190 more
core   +5 more sources

Chromosome-scale genome assembly of the transformation-amenable common wheat cultivar ‘Fielder’

DNA Research, 2021
We have established a high-quality, chromosome-level genome assembly for the hexaploid common wheat cultivar ‘Fielder’, an American, soft, white, pastry-type wheat released in 1974 and known for its amenability to Agrobacterium tumefaciens-mediated ...
Kazuhiro Sato, Fumitaka Abe, M. Mascher, G. Haberer, H. Gundlach, M. Spannagl, K. Shirasawa, S. Isobe   +7 more
semanticscholar   +1 more source

A chromosome-level Camptotheca acuminata genome assembly provides insights into the evolutionary origin of camptothecin biosynthesis

Nature Communications, 2021
Camptothecin and its derivatives are widely used for treating malignant tumors. Previous studies revealed only a limited number of candidate genes for camptothecin biosynthesis in Camptotheca acuminata, and it is still poorly understood how its ...
Minghui Kang, Rao Fu, Pingyu Zhang, Shangling Lou, Xuchen Yang, Yang Chen, T. Ma, Yang Zhang, Zhenxiang Xi, Jianquan Liu   +9 more
semanticscholar   +1 more source

Improvements in the sequencing and assembly of plant genomes

GigaByte, 2021
Advances in DNA sequencing have made it easier to sequence and assemble plant genomes. Here, we extend an earlier study, and compare recent methods for long read sequencing and assembly.
Priyanka Sharma , Othman Al-Dossary , Bader Alsubaie , Ibrahim Al-Mssallem , Onkar Nath , Neena Mitter , Gabriel Rodrigues Alves Margarido , Bruce Topp , Valentine Murigneux , Ardashir Kharabian Masouleh , Agnelo Furtado , Robert J. Henry   +11 more
doaj   +1 more source

Fast and accurate de novo genome assembly from long uncorrected reads

bioRxiv, 2016
The assembly of long reads from Pacific Biosciences and Oxford Nanopore Technologies typically requires resource intensive error correction and consensus generation steps to obtain high quality assemblies.
Robert Vaser, Ivan Sovic, N. Nagarajan, M. Šikić   +3 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, Ryo Nakabayashi, S. Kikuchi, Koki Hayashi, Megha Rai, H. Tsugawa, Taiki Nakaya, Tetsuya 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

Draft Genome Sequence of Curtobacterium flaccumfaciens Strain UCD-AKU (Phylum Actinobacteria). [PDF]

, 2013
Here we present the draft genome of an actinobacterium, Curtobacterium flaccumfaciens strain UCD-AKU, isolated from a residential carpet. The genome assembly contains 3,692,614 bp in 130 contigs. This is the first member of the Curtobacterium genus to be
Coil, David A, Darling, Aaron E, Eisen, Jonathan A, Flanagan, Jennifer C, Lang, Jenna M   +4 more
core   +1 more source