scholarly journals Genome-wide in silico identification and characterization of Simple Sequence Repeats in diverse completed SARS-CoV-2 genomes

Gene Reports ◽  
2021 ◽  
Vol 23 ◽  
pp. 101020
Author(s):  
Rasel Siddiqe ◽  
Ajit Ghosh
Keyword(s):  
Simple Sequence Repeats ◽  
In Silico ◽  
Genome Wide ◽  
In Silico Identification ◽  
Identification And Characterization ◽  
Simple Sequence

Genome-wide in silico identification and characterization of sodium-proton (Na+/H+) antiporters in Indica rice

Plant Gene ◽  
2021 ◽  
pp. 100280
Author(s):  
Tushar Khare ◽  
Shrushti Joshi ◽  
Kawaljeet Kaur ◽  
Amrita Srivastav ◽  
Varsha Shriram ◽  
...  
Keyword(s):  
In Silico ◽  
Indica Rice ◽  
Genome Wide ◽  
In Silico Identification ◽  
Identification And Characterization

In silico identification and characterization of sensory motifs in the transcriptional regulators of the ArsR-SmtB family

Metallomics ◽  
2018 ◽  
Vol 10 (10) ◽  
pp. 1476-1500 ◽  
Author(s):  
Rima Roy ◽  
Saikat Samanta ◽  
Surajit Patra ◽  
Nav Kumar Mahato ◽  
Rudra P. Saha
Keyword(s):  
In Silico ◽  
Transcriptional Regulators ◽  
Transcriptional Repressors ◽  
Structural Elements ◽  
In Silico Identification ◽  
Metal Efflux ◽  
Identification And Characterization ◽  
Secondary Structural Elements ◽  
Efflux Proteins

The ArsR-SmtB family of transcriptional repressors regulates the transcription of metal-efflux proteins by binding specific metals at a variety of secondary structural elements, called motifs, on the surface of the proteins.

scholarly journals In silico identification and characterization of novel microsatellite loci for the Blue-and-yellow Macaw Ara ararauna (Linnaeus, 1758) (Psittaciformes, Psittacidae)

2019 ◽  
Vol 42 (1) ◽  
pp. 68-73
Author(s):  
Cássia Alves Lima-Rezende ◽  
Gislaine Aparecida Fernandes ◽  
Helder Elias da Silva ◽  
Sarah Dobkowski-Marinho ◽  
Victor Fernandes Santos ◽  
...  
Keyword(s):  
Microsatellite Loci ◽  
In Silico ◽  
In Silico Identification ◽  
Identification And Characterization

scholarly journals Characterization of Simple Sequence Repeats (SSRs) in Ciliated Protists Inferred by Comparative Genomics

2020 ◽  
Vol 8 (5) ◽  
pp. 662 ◽  
Author(s):  
Yuan Li ◽  
Xiao Chen ◽  
Kun Wu ◽  
Jiao Pan ◽  
Hongan Long ◽  
...  
Keyword(s):  
Simple Sequence Repeats ◽  
Evolutionary History ◽  
Rapid Evolution ◽  
Genome Diversity ◽  
Unicellular Eukaryotes ◽  
Genome Wide ◽  
Species Analysis ◽  
Simple Sequence ◽  
High Diversity

Simple sequence repeats (SSRs) are prevalent in the genomes of all organisms. They are widely used as genetic markers, and are insertion/deletion mutation hotspots, which directly influence genome evolution. However, little is known about such important genomic components in ciliated protists, a large group of unicellular eukaryotes with extremely long evolutionary history and genome diversity. With recent publications of multiple ciliate genomes, we start to get a chance to explore perfect SSRs with motif size 1–100 bp and at least three motif repeats in nine species of two ciliate classes, Oligohymenophorea and Spirotrichea. We found that homopolymers are the most prevalent SSRs in these A/T-rich species, with AAA (lysine, charged amino acid; also seen as an SSR with one-adenine motif repeated three times) being the codons repeated at the highest frequencies in coding SSR regions, consistent with the widespread alveolin proteins rich in lysine repeats as found in Tetrahymena. Micronuclear SSRs are universally more abundant than the macronuclear ones of the same motif-size, except for the 8-bp-motif SSRs in extensively fragmented chromosomes. Both the abundance and A/T content of SSRs decrease as motif-size increases, while the abundance is positively correlated with the A/T content of the genome. Also, smaller genomes have lower proportions of coding SSRs out of all SSRs in Paramecium species. This genome-wide and cross-species analysis reveals the high diversity of SSRs and reflects the rapid evolution of these simple repetitive elements in ciliate genomes.

In sílico identification and characterization of putative Dot/Icm secreted virulence effectors in the fish pathogen Piscirickettsia salmonis

2016 ◽  
Vol 92 ◽  
pp. 11-18 ◽  
Author(s):  
Álvaro Labra ◽  
Oscar Arredondo-Zelada ◽  
Patricio Flores-Herrera ◽  
Sergio H. Marshall ◽  
Fernando A. Gómez
Keyword(s):  
In Silico ◽  
Fish Pathogen ◽  
In Silico Identification ◽  
Piscirickettsia Salmonis ◽  
Identification And Characterization ◽  
Virulence Effectors
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