Integration of DNA Microarray with Clinical and Genomic Data

Actin and tubulin are cytoskeleton proteins, which are important components of the celland are conserved across species. Despite their crucial significance in cell motility and cell division the distribution and phylogeny of actin and tubulin genes across taxa is poorly understood. Here we used publicly available genomic data of 49 model species of plants, animals, fungi and Protista for further understanding the distribution of these genes among diverse eukaryotic species using rice as reference. The highest numbers of rice actin and tubulin gene homologs were present in plants followed by animals, fungi and Protista species, whereas ten actin and nine tubulin genes were conserved in all 49 species. Phylogenetic analysis of 19 actin and 18 tubulin genes clustered them into four major groups each. One each of the actin and tubulin gene clusters was conserved across eukaryotic species. Species trees based on the conserved actin and tubulin genes showed evolutionary relationship of 49 different taxa clustered into plants, animals, fungi and Protista. This study provides a phylogenetic insight into the evolution of actin and tubulin genes in diverse eukaryotic species.

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Faculty Opinions recommendation of A Bayesian networks approach for predicting protein-protein interactions from genomic data.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.1016965.201724 ◽

2004 ◽

Author(s):

Rolf Apweiler

Keyword(s):

Bayesian Networks ◽

Protein Interactions ◽

Genomic Data ◽

Protein Protein Interactions

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Faculty Opinions recommendation of Finding function: evaluation methods for functional genomic data.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.1044091.496329 ◽

2006 ◽

Author(s):

Russ Altman

Keyword(s):

Genomic Data ◽

Evaluation Methods ◽

Function Evaluation ◽

Functional Genomic ◽

Functional Genomic Data

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Faculty Opinions recommendation of DNA microarray analyses and interactomic predictions for atopic dermatitis.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.1163826.625638 ◽

2009 ◽

Author(s):

Antonella Muraro ◽

Francesca Barbon

Keyword(s):

Atopic Dermatitis ◽

Dna Microarray ◽

Microarray Analyses

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Double-stranded DNA microarray: principal, techniques and applications

Hereditas (Beijing) ◽

10.3724/sp.j.1005.2013.00287 ◽

2013 ◽

Vol 35 (3) ◽

pp. 287-306

Author(s):

Yan PAN ◽

Jin-Ke WANG

Keyword(s):

Dna Microarray ◽

Double Stranded Dna

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Microarray Technology for the Detection of Antimicrobial Resistance Genes Present in Hospital and Community Acquired Methicillin Resistant S.aureus Strains

Revista de Chimie ◽

10.37358/rc.17.11.5925 ◽

2017 ◽

Vol 68 (11) ◽

pp. 2546-2550

Author(s):

Monica Licker ◽

Andrei Anghel ◽

Roxana Moldovan ◽

Elena Hogea ◽

Delia Muntean ◽

...

Keyword(s):

Antimicrobial Resistance ◽

Dna Microarray ◽

Bacterial Resistance ◽

Meca Gene ◽

Modern Medicine ◽

Microarray Technology ◽

Methicillin Resistant ◽

Antimicrobial Sensitivity ◽

Antimicrobial Resistance Genes ◽

Mrsa Strains

Antimicrobial resistance (AMR) represents a real burden for the modern medicine. One of the most frecvently isolated hospital acquired (HA) pathogens wordlwide, is Methicillin resistant Staphylococcus aureus (MRSA). Recently not only HA, but also community-acquired MRSA (CA-MRSA) infections have been reported. A prospective study was performed between February 2009 and October 2010, with the aim to investigate bacterial resistance of CA-MRSA and HA-MRSA. DNA microarray technology has been used for the detection of 4 AMR genes for the studied MRSA strains. A number of 218 HA- S.aureus strains have been isolated, from which 89 (40. 82%) were MRSA. In the community, 1.553 S.aureus strains were isolated, out of which, 356 (22. 92%) were MRSA. From these, a number of 17 HA and 12 CA �MRSA strains have been analyzed by DNA microarray technology. From 100% phenotypically described HA- MRSA, we identified mecA gene in 10 strains (58. 83%). Other 6 strains (35. 29%) have been erm(A) positive and 4 (23. 53%) - tet(O) positive. 83. 33% (10 strains) from the CA strains had mecA gene, only one (8. 33%) was erm(A) positive and 4 (33. 33%) were erm(C) positive. DNA microarray is a method allowing the concomitant scan of multiple genes and can be done within a few hours. That type of rapid and reliable methods for antimicrobial sensitivity tests are important to start an appropriate therapy.

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