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

A high‐quality carabid genome assembly provides insights into beetle genome evolution and cold adaptation

2021 ◽  
Author(s):  
Yi‐Ming Weng ◽  
Charlotte B. Francoeur ◽  
Cameron R. Currie ◽  
David H. Kavanaugh ◽  
Sean D. Schoville
Keyword(s):  
Genome Evolution ◽  
Genome Assembly ◽  
Cold Adaptation ◽  
High Quality

scholarly journals Complete genome sequence of Arthrobacter sp. PAMC25564 and its comparative genome analysis for elucidating the role of CAZymes in cold adaptation

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
So-Ra Han ◽  
Byeollee Kim ◽  
Jong Hwa Jang ◽  
Hyun Park ◽  
Tae-Jin Oh
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Cold Adaptation ◽  
Gc Content ◽  
Glycogen Metabolism ◽  
Extreme Environment ◽  
Circular Chromosome ◽  
Cold Regions ◽  
Insight Into

Abstract Background The Arthrobacter group is a known set of bacteria from cold regions, the species of which are highly likely to play diverse roles at low temperatures. However, their survival mechanisms in cold regions such as Antarctica are not yet fully understood. In this study, we compared the genomes of 16 strains within the Arthrobacter group, including strain PAMC25564, to identify genomic features that help it to survive in the cold environment. Results Using 16 S rRNA sequence analysis, we found and identified a species of Arthrobacter isolated from cryoconite. We designated it as strain PAMC25564 and elucidated its complete genome sequence. The genome of PAMC25564 is composed of a circular chromosome of 4,170,970 bp with a GC content of 66.74 % and is predicted to include 3,829 genes of which 3,613 are protein coding, 147 are pseudogenes, 15 are rRNA coding, and 51 are tRNA coding. In addition, we provide insight into the redundancy of the genes using comparative genomics and suggest that PAMC25564 has glycogen and trehalose metabolism pathways (biosynthesis and degradation) associated with carbohydrate active enzyme (CAZymes). We also explain how the PAMC26654 produces energy in an extreme environment, wherein it utilizes polysaccharide or carbohydrate degradation as a source of energy. The genetic pattern analysis of CAZymes in cold-adapted bacteria can help to determine how they adapt and survive in such environments. Conclusions We have characterized the complete Arthrobacter sp. PAMC25564 genome and used comparative analysis to provide insight into the redundancy of its CAZymes for potential cold adaptation. This provides a foundation to understanding how the Arthrobacter strain produces energy in an extreme environment, which is by way of CAZymes, consistent with reports on the use of these specialized enzymes in cold environments. Knowledge of glycogen metabolism and cold adaptation mechanisms in Arthrobacter species may promote in-depth research and subsequent application in low-temperature biotechnology.

SINE-B1 Distribution and Chromosome Rearrangements in the South American Proechimys gr. goeldii (Echimyidae, Rodentia)

2021 ◽  
pp. 1-8
Author(s):  
Naiara P. Araújo ◽  
Radarane S. Sena ◽  
Cibele R. Bonvicino ◽  
Gustavo C.S. Kuhn ◽  
Marta Svartman
Keyword(s):  
Transposable Element ◽  
Genome Evolution ◽  
Significant Role ◽  
Sex Chromosomes ◽  
Chromosomal Rearrangements ◽  
Evolutionary Relationship ◽  
Chromosome Rearrangements ◽  
South American ◽  
Gross Chromosomal Rearrangements

<i>Proechimys</i> species are remarkable for their extensive chromosome rearrangements, representing a good model to understand genome evolution. Herein, we cytogenetically analyzed 3 different cytotypes of <i>Proechimys</i> gr. <i>goeldii</i> to assess their evolutionary relationship. We also mapped the transposable element SINE-B1 on the chromosomes of <i>P.</i> gr. <i>goeldii</i> in order to investigate its distribution among individuals and evaluate its possible contribution to karyotype remodeling in this species. SINE-B1 showed a dispersed distribution along chromosome arms and was also detected at the pericentromeric regions of some chromosomes, including pair 1 and the sex chromosomes, which are involved in chromosome rearrangements. In addition, we describe a new cytotype for <i>P.</i> gr. <i>goeldii</i>, reinforcing the significant role of gross chromosomal rearrangements during the evolution of the genus. The results of FISH with SINE-B1 suggest that this issue should be more deeply investigated for a better understanding of its role in the mechanisms involved in the wide variety of <i>Proechimys</i> karyotypes.

scholarly journals Exploring the role of a glycine cluster in cold adaptation of an alkaline phosphatase

2002 ◽  
Vol 269 (9) ◽  
pp. 2330-2335 ◽  
Author(s):  
Konstantinos Mavromatis ◽  
Iason Tsigos ◽  
Maria Tzanodaskalaki ◽  
Michael Kokkinidis ◽  
Vassilis Bouriotis
Keyword(s):  
Alkaline Phosphatase ◽  
Cold Adaptation

A Possible Role of DNA Superstructures in Genome Evolution

2004 ◽  
Vol 34 (1/2) ◽  
pp. 143-149 ◽  
Author(s):  
Claudio Anselmi ◽  
Pasquale de Santis ◽  
Raffaella Paparcone ◽  
Maria Savino ◽  
Anita Scipioni
Keyword(s):  
Genome Evolution

scholarly journals Role of Host-Driven Mutagenesis in Determining Genome Evolution of Sigma Virus (DMelSV; Rhabdoviridae) inDrosophila melanogaster

2016 ◽  
Vol 8 (9) ◽  
pp. 2952-2963 ◽  
Author(s):  
Helen Piontkivska ◽  
Luis F. Matos ◽  
Sinu Paul ◽  
Brian Scharfenberg ◽  
William G. Farmerie ◽  
...  
Keyword(s):  
Genome Evolution ◽  
Sigma Virus

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
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