scholarly journals The Norway spruce genome sequence and conifer genome evolution

Nature ◽  
2013 ◽  
Vol 497 (7451) ◽  
pp. 579-584 ◽  
Author(s):  
Björn Nystedt ◽  
Nathaniel R. Street ◽  
Anna Wetterbom ◽  
Andrea Zuccolo ◽  
Yao-Cheng Lin ◽  
...  
Keyword(s):  
Genome Evolution ◽  
Norway Spruce ◽  
Genome Sequence ◽  
Conifer Genome

scholarly journals Genome evolution of SARS-CoV-2 and its virological characteristics

2020 ◽  
Vol 40 (1) ◽  
Author(s):  
So Nakagawa ◽  
Takayuki Miyazawa
Keyword(s):  
Genome Evolution ◽  
Genome Sequence ◽  
Causative Agent ◽  
Sequence Data ◽  
Genome Sequences ◽  
Genome Sequence Data ◽  
Global Prevalence ◽  
Horseshoe Bats

AbstractCoronavirus disease of 2019 (COVID-19), which originated in China in 2019, shows mild cold and pneumonia symptoms that can occasionally worsen and result in deaths. SARS-CoV-2 was reported to be the causative agent of the disease and was identified as being similar to SARS-CoV, a causative agent of SARS in 2003. In this review, we described the phylogeny of SARS-CoV-2, covering various related studies, in particular, focusing on viruses obtained from horseshoe bats and pangolins that belong to Sarbecovirus, a subgenus of Betacoronavirus. We also describe the virological characteristics of SARS-CoV-2 and compare them with other coronaviruses. More than 30,000 genome sequences of SARS-CoV-2 are available in the GISAID database as of May 28, 2020. Using the genome sequence data of closely related viruses, the genomic characteristics and evolution of SARS-CoV-2 were extensively studied. However, given the global prevalence of COVID-19 and the large number of associated deaths, further computational and experimental virological analyses are required to fully characterize SARS-CoV-2.

scholarly journals Genome sequence of cultivated Upland cotton (Gossypium hirsutum TM-1) provides insights into genome evolution

2015 ◽  
Vol 33 (5) ◽  
pp. 524-530 ◽  
Author(s):  
Fuguang Li ◽  
Guangyi Fan ◽  
Cairui Lu ◽  
Guanghui Xiao ◽  
Changsong Zou ◽  
...  
Keyword(s):  
Gossypium Hirsutum ◽  
Genome Evolution ◽  
Genome Sequence ◽  
Upland Cotton

scholarly journals Implications of the Plastid Genome Sequence of Typha (Typhaceae, Poales) for Understanding Genome Evolution in Poaceae

2010 ◽  
Vol 70 (2) ◽  
pp. 149-166 ◽  
Author(s):  
Mary M. Guisinger ◽  
Timothy W. Chumley ◽  
Jennifer V. Kuehl ◽  
Jeffrey L. Boore ◽  
Robert K. Jansen
Keyword(s):  
Genome Evolution ◽  
Genome Sequence ◽  
Plastid Genome

scholarly journals Chromosome Level Genome Assembly Reveals Cassia Tora May Be an Ancient Species in Leguminosae

2020 ◽  
Author(s):  
Caicai Lin ◽  
Piyi Xing ◽  
Changhao Zhou ◽  
Xingfeng Li ◽  
Zhenqiao Song
Keyword(s):  
Genome Evolution ◽  
Genome Sequence ◽  
Reference Genome ◽  
Chromatin Interaction ◽  
Leguminous Plant ◽  
Future Research ◽  
Comparative Genomic ◽  
Cassia Tora ◽  
Reference Genome Sequence ◽  
Legume Crops

Abstract Background: Cassia tora L. is an annual leguminous plant. Its seeds had wide utility in herbal medicine in Asian, but is usually regard as a potent, invasive weed which even helps farmers eliminate other parasitic weed species. However, compared with other important legume crops, C. tora is far from fully developed and the genetic basis is greatly lacking. A reference genome sequence will be great valuable resource for its genome evolution, genetic breeding and development.Results: Here, we de novo assembled a chromosome-scale genome for C. tora by combining PacBio sequencing technology with chromatin interaction mapping, resulting in 621-Mb genome with a contig N50 of 2.5 Mb, of which 77.44% was ordered and oriented on 13 pseudochromosomes. The genome contained 32,361 protein-coding genes with a repetitive DNA content of approximately 58.15%. Gypsy-type LTRs constituted the largest subfamily. LTR insertion events seldom occurred in this genome over the past 10 million years. Comparative genomic analyses showed that C. tora diverged ~95 million years ago (MYA), which revealed it has the most distant genetic relationship with 11 other legumes. Compared with other legume crops, Cassia tora is maybe an ancient species in Leguminosae.Conclusions: The high-quality reference genome sequence reported here furnishes unprecedented insights into genome dynamics and provides an important basis for future research on legume genome evolution.

scholarly journals Intrinsic laws of k-mer spectra of genome sequences and evolution mechanism of genomes

2020 ◽  
Author(s):  
Zhenhua Yang ◽  
Hong Li ◽  
Yun Jia ◽  
Yan Zheng ◽  
Hu Meng ◽  
...  
Keyword(s):  
Genome Evolution ◽  
Genome Sequence ◽  
Dna Sequences ◽  
Extreme Environments ◽  
Sequence Evolution ◽  
Genome Sequences ◽  
Mutual Inhibition ◽  
Evolution Mechanism ◽  
Sequence Composition

Abstract Background K-mer spectra of DNA sequences contain important information about sequence composition and sequence evolution. We want to reveal the evolution rules of genome sequences by studying the k-mer spectra of genome sequences. Results The intrinsic laws of k-mer spectra of 920 genome sequences from primate to prokaryote were analyzed. We found that there are two types of evolution selection modes in genome sequences, named as CG Independent Selection and TA Independent Selection. There is a mutual inhibition relationship between CG and TA independent selections. We found that the intensity of CG and TA independent selections correlates closely with genome evolution and G+C content of genome sequences. The living habits of species are related closely to the independent selection modes adopted by species genomes. Consequently, we proposed an evolution mechanism of genomes in which the genome evolution is determined by the intensities of the CG and TA independent selections and the mutual inhibition relationship. Besides, by the evolution mechanism of genomes, we speculated the evolution modes of prokaryotes in mild and extreme environments in the anaerobic age and the evolving process of prokaryotes from anaerobic to aerobic environment on earth as well as the originations of different eukaryotes. Conclusion We found that there are two independent selection modes in genome sequences. The evolution of genome sequence is determined by the two independent selection modes and the mutual inhibition relationship between them.

scholarly journals The genome sequence of the psychrophilic archaeon, Methanococcoides burtonii: the role of genome evolution in cold adaptation

2009 ◽  
Vol 3 (9) ◽  
pp. 1012-1035 ◽  
Author(s):  
Michelle A Allen ◽  
Federico M Lauro ◽  
Timothy J Williams ◽  
Dominic Burg ◽  
Khawar S Siddiqui ◽  
...  
Keyword(s):  
Genome Evolution ◽  
Genome Sequence ◽  
Cold Adaptation
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