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Gotowe bibliografie tematyczne / Genome collinearity

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Artykuły w czasopismach
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Gotowa bibliografia na temat „Genome collinearity”

Autor: Grafiati

Data publikacji: 3 czerwca 2025

Data aktualizacji: 31 lipca 2025

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Artykuły w czasopismach na temat "Genome collinearity"

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Stirling, Brigid, Zamin Koo Yang, Lee E. Gunter, Gerald A. Tuskan, and H. D. Bradshaw Jr. "Comparative sequence analysis between orthologous regions of the Arabidopsis and Populus genomes reveals substantial synteny and microcollinearity." Canadian Journal of Forest Research 33, no. 11 (2003): 2245–51. http://dx.doi.org/10.1139/x03-155.

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More than 300 kb of DNA sequence from five Populus bacterial artificial chromosome (BAC) clones was compared with the complete sequence of the Arabidopsis genome to search for collinearity between the genomes of these two plant genera. Approximately 27% of the DNA sequences from the Populus genome were homologous to protein-coding regions in the Arabidopsis genome. BLAST scores and synteny were used to infer orthologous relationships between the Populus and Arabidopsis homologs. The probability that any pair of genes on a single Populus BAC will have orthologs on the same Arabidopsis chromosom

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Xu, Yiqing, Changwei Bi, Guoxin Wu, et al. "VGSC: A Web-Based Vector Graph Toolkit of Genome Synteny and Collinearity." BioMed Research International 2016 (2016): 1–7. http://dx.doi.org/10.1155/2016/7823429.

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Background. In order to understand the colocalization of genetic loci amongst species, synteny and collinearity analysis is a frequent task in comparative genomics research. However many analysis software packages are not effective in visualizing results. Problems include lack of graphic visualization, simple representation, or inextensible format of outputs. Moreover, higher throughput sequencing technology requires higher resolution image output. Implementation. To fill this gap, this paper publishes VGSC, the Vector Graph toolkit of genome Synteny and Collinearity, and its online service, t

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Liu, Longxiang, Shuai Peng, Weiyu Song, Hongyu Zhao, Hua Li, and Hua Wang. "Genomic Analysis of an Excellent Wine-Making Strain Oenococcus oeni SD-2a." Polish Journal of Microbiology 71, no. 2 (2022): 279–92. http://dx.doi.org/10.33073/pjm-2022-026.

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Abstract Oenococcus oeni is an important microorganism in wine-making-related engineering, and it improves wine quality and stability through malolactic fermentation. Although the genomes of more than 200 O. oeni strains have been sequenced, only a few include completed genome maps. Here, the genome sequence of O. oeni SD-2a, isolated from Shandong, China, has been determined. It is a fully assembled genome sequence of this strain. The complete genome is 1,989,703 bp with a G+C content of 37.8% without a plasmid. The genome includes almost all the essential genes involved in central metabolic

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Yang, Jia, Jinxuan Wen, Simin Xiao, et al. "Complete Genome and Molecular Characterization of a New Cyprinid Herpesvirus 2 (CyHV-2) SH-01 Strain Isolated from Cultured Crucian Carp." Viruses 14, no. 9 (2022): 2068. http://dx.doi.org/10.3390/v14092068.

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Cyprinid herpesvirus 2 (CyHV-2) is a causative factor of herpesviral hematopoietic necrosis (HVHN) in farmed crucian carp (Carassius carassius) and goldfish (Carassius auratus). In this study, we analyzed the genomic characteristics of a new strain, CyHV-2 SH-01, isolated during outbreaks in crucian carp at a local fish farm near Shanghai, China. CyHV-2 SH-01 exhibited a high sensitivity to goldfish and crucian carp in our previous research. The complete genome of SH-01 is 290,428 bp with 154 potential open reading frames (ORFs) and terminal repeat (TR) regions at both ends. Compared to the se

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Parkin, I. AP, D. J. Lydiate, and M. Trick. "Assessing the level of collinearity between Arabidopsis thaliana and Brassica napus for A. thaliana chromosome 5." Genome 45, no. 2 (2002): 356–66. http://dx.doi.org/10.1139/g01-160.

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This study describes a comprehensive comparison of chromosome 5 of the model crucifer Arabidopsis with the genome of its amphidiploid crop relative Brassica napus and introduces the use of in silico sequence homology to identify conserved loci between the two species. A region of chromosome 5, spanning 8 Mb, was found in six highly conserved copies in the B. napus genome. A single inversion appeared to be the predominant rearrangement that had separated the two lineages leading to the formation of Arabidopsis chromosome 5 and its homologues in B. napus. The observed results could be explained

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Kong, Lingyang, Lengleng Ma, Shan Jiang, et al. "Genome-Wide Identification, Exogenous Hormone Response, Gene Structure, and Conserved Motif Analysis of the GRF Gene Family in Cerasus humilis." Biology 14, no. 7 (2025): 763. https://doi.org/10.3390/biology14070763.

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The Cerasus humilis, a perennial shrub belonging to the Cerasus genus, is native to China and holds significant ecological and economic importance. Growth regulation factors (GRF) are a family of transcription factors (TF) that play a key role in plant growth and development. This research entailed an in-depth examination of the GRF family in C. humilis, exploring its significance in the evolution of C. humilis. Twelve GRF genes were identified in the C. humilis genome. Named separately as ChGRF1-Chumilis15987.1, ChGRF2-Chumilis25207.1, ChGRF3-Chumilis26233.1, ChGRF4-Chumilis08578.3, ChGRF5-Ch

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Gaiero, Paola, José van de Belt, Francisco Vilaró, M. Eric Schranz, Pablo Speranza, and Hans de Jong. "Collinearity between potato (Solanum tuberosum L.) and wild relatives assessed by comparative cytogenetic mapping." Genome 60, no. 3 (2017): 228–40. http://dx.doi.org/10.1139/gen-2016-0150.

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A major bottleneck to introgressive hybridization is the lack of genome collinearity between the donor (alien) genome and the recipient crop genome. Structural differences between the homeologs may create unbalanced segregation of chromosomes or cause linkage drag. To assess large-scale collinearity between potato and two of its wild relatives (Solanum commersonii and Solanum chacoense), we used BAC-FISH mapping of sequences with known positions on the RH potato map. BAC probes could successfully be hybridized to the S. commersonii and S. chachoense pachytene chromosomes, confirming their corr

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Udall, Joshua A., Evan Long, Chris Hanson, et al. "De Novo Genome Sequence Assemblies of Gossypium raimondii and Gossypium turneri." G3: Genes|Genomes|Genetics 9, no. 10 (2019): 3079–85. http://dx.doi.org/10.1534/g3.119.400392.

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Cotton is an agriculturally important crop. Because of its importance, a genome sequence of a diploid cotton species (Gossypium raimondii, D-genome) was first assembled using Sanger sequencing data in 2012. Improvements to DNA sequencing technology have improved accuracy and correctness of assembled genome sequences. Here we report a new de novo genome assembly of G. raimondii and its close relative G. turneri. The two genomes were assembled to a chromosome level using PacBio long-read technology, HiC, and Bionano optical mapping. This report corrects some minor assembly errors found in the Sa

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Heraghty, Sam D., John M. Sutton, Meaghan L. Pimsler, Janna L. Fierst, James P. Strange, and Jeffrey D. Lozier. "De Novo Genome Assemblies for Three North American Bumble Bee Species: Bombus bifarius, Bombus vancouverensis, and Bombus vosnesenskii." G3: Genes|Genomes|Genetics 10, no. 8 (2020): 2585–92. http://dx.doi.org/10.1534/g3.120.401437.

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Bumble bees are ecologically and economically important insect pollinators. Three abundant and widespread species in western North America, Bombus bifarius, Bombus vancouverensis, and Bombus vosnesenskii, have been the focus of substantial research relating to diverse aspects of bumble bee ecology and evolutionary biology. We present de novo genome assemblies for each of the three species using hybrid assembly of Illumina and Oxford Nanopore Technologies sequences. All three assemblies are of high quality with large N50s (> 2.2 Mb), BUSCO scores indicating > 98% complete genes, and annot

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Xu, Yiqing, Qi'ang Wang, Luis Tanon Reyes, et al. "VGSC2: Second generation vector graph toolkit of genome synteny and collinearity." Genomics 112, no. 1 (2020): 286–88. http://dx.doi.org/10.1016/j.ygeno.2019.02.007.

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Rozprawy doktorskie na temat "Genome collinearity"

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Cavell, Alison Clare. "Collinearity between the Brassica napus and Arabidopsis thaliana genomes." Thesis, University of East Anglia, 1997. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.389351.

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