สืบค้นงานวิจัย
Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis
Skwark M.J. - ไม่ระบุหน่วยงาน
ชื่อเรื่อง (EN): Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis
ผู้แต่ง / หัวหน้าโครงการ (EN): Skwark M.J.
บทคัดย่อ (EN): Recent advances in the scale and diversity of population genomic datasets for bacteria now provide the potential for genome-wide patterns of co-evolution to be studied at the resolution of individual bases. Here we describe a new statistical method, genomeDCA, which uses recent advances in computational structural biology to identify the polymorphic loci under the strongest co-evolutionary pressures. We apply genomeDCA to two large population data sets representing the major human pathogens Streptococcus pneumoniae (pneumococcus) and Streptococcus pyogenes (group A Streptococcus). For pneumococcus we identified 5,199 putative epistatic interactions between 1,936 sites. Over three-quarters of the links were between sites within the pbp2x, pbp1a and pbp2b genes, the sequences of which are critical in determining non-susceptibility to beta-lactam antibiotics. A network-based analysis found these genes were also coupled to that encoding dihydrofolate reductase, changes to which underlie trimethoprim resistance. Distinct from these antibiotic resistance genes, a large network component of 384 protein coding sequences encompassed many genes critical in basic cellular functions, while another distinct component included genes associated with virulence. The group A Streptococcus (GAS) data set population represents a clonal population with relatively little genetic variation and a high level of linkage disequilibrium across the genome. Despite this, we were able to pinpoint two RNA pseudouridine synthases, which were each strongly linked to a separate set of loci across the chromosome, representing biologically plausible targets of co-selection. The population genomic analysis method applied here identifies statistically significantly co-evolving locus pairs, potentially arising from fitness selection interdependence reflecting underlying protein-protein interactions, or genes whose product activities contribute to the same phenotype. This discovery approach greatly enhances the future potential of epistasis analysis for systems biology, and can complement genome-wide association studies as a means of formulating hypotheses for targeted experimental work. © 2017 Skwark et al.
บทคัดย่อ: ไม่พบข้อมูลจากหน่วยงานต้นทาง
ภาษา (EN): en
เอกสารแนบ (EN): https://www.scopus.com/inward/record.uri?eid=2-s2.0-85014119857&doi=10.1371%2fjournal.pgen.1006508&partnerID=40&md5=50169ed68a9a27f45eaf0900c5f77d11
เผยแพร่โดย (EN): มหาวิทยาลัยมหิดล
คำสำคัญ (EN): Streptococcus pyogenes
เจ้าของลิขสิทธิ์ (EN): มหาวิทยาลัยมหิดล
หากไม่พบเอกสารฉบับเต็ม (Full Text) โปรดติดต่อหน่วยงานเจ้าของข้อมูล

การอ้างอิง

Skwark M.J.. "Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis". ไม่ระบุหน่วยงาน. ม.ป.ป.

Skwark M.J.. "Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis". ไม่ระบุหน่วยงาน. ม.ป.ป.. Print.



TARR Wordcloud:
Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis
Skwark M.J.
มหาวิทยาลัยมหิดล
ไม่ระบุวันที่เผยแพร่
Genome-wide analysis reveals phytohormone action during cassava storage root initiation Genome-wide analysis of aquaporin gene family and their responses to water-deficit stress conditions in cassava Genome-wide prediction of the polymorphic Ser gene family in Tetrahymena thermophila based on motif analysis Bioinformatics tools and databases for whole genome sequence analysis of Mycobacterium tuberculosis Analysis of β-tubulin Genes of Corynespora cassiicola Strains Resistant to Carbendazim in China IDENTIFICATION OF DROUGHT TOLERANT GENES BY QUANTITATIVE EXPRESSION ANALYSIS IN HEVEA BRASILIENSIS A genome wide association study of Plasmodium falciparum susceptibility to 22 antimalarial drugs in Kenya Comparative genome analysis of fish pathogen Flavobacterium columnare reveals extensive sequence diversity within the species Pseudomonas aeruginosa glutathione biosynthesis genes play multiple roles in stress protection, bacterial virulence and biofilm formation Whole-genome sequence analysis of Zika virus isolated from the plasma of an infected patient in Thailand
คัดลอก URL
กระทู้ของฉัน
ผลการสืบค้นทั้งหมด โพสต์     เรียงลำดับจาก
พัฒนาระบบโดยศูนย์ความรู้เฉพาะด้านวิศวกรรมความรู้และวิศวกรรมภาษาDeveloped by Center of Excellence for Unified Knowledge and Language Engineering
สนับสนุนโดยสำนักงานพัฒนาการวิจัยการเกษตร (องค์การมหาชน)Supported by the Agricultural Research Development Agency (Public Organization)
แบบสำรวจความพึงพอใจQuestionair