Type

Journal Article

Authors

Tom Beresford
R Paul Ross
Gerald F Fitzgerald
Michael Callanan
Pawel Kaleta
Lydia Slattery
Olivia McAuliffe
Amaia Sangrador-Vegas
John O'Callaghan
Orla O'Sullivan

Subjects

Microbiology

Topics
dna bacterial evolution molecular gene expression regulation bacterial genetics gene expression profiling lactobacillus acidophilus sequence analysis dna genes bacterial metabolism lactobacillus helveticus phylogeny species specificity adaptation biological comparative genomic hybridization genome bacterial genomics

Comparative genomics of lactic acid bacteria reveals a niche-specific gene set. (2008)

Abstract The recently sequenced genome of Lactobacillus helveticus DPC4571 revealed a dairy organism with significant homology (75% of genes are homologous) to a probiotic bacteria Lb. acidophilus NCFM. This led us to hypothesise that a group of genes could be determined which could define an organism's niche. Taking 11 fully sequenced lactic acid bacteria (LAB) as our target, (3 dairy LAB, 5 gut LAB and 3 multi-niche LAB), we demonstrated that the presence or absence of certain genes involved in sugar metabolism, the proteolytic system, and restriction modification enzymes were pivotal in suggesting the niche of a strain. We identified 9 niche specific genes, of which 6 are dairy specific and 3 are gut specific. The dairy specific genes identified in Lactobacillus helveticus DPC4571 were lhv_1161 and lhv_1171, encoding components of the proteolytic system, lhv_1031 lhv_1152, lhv_1978 and lhv_0028 encoding restriction endonuclease genes, while bile salt hydrolase genes lba_0892 and lba_1078, and the sugar metabolism gene lba_1689 from Lb. acidophilus NCFM were identified as gut specific genes. Comparative analysis revealed that if an organism had homologs to the dairy specific geneset, it probably came from a dairy environment, whilst if it had homologs to gut specific genes, it was highly likely to be of intestinal origin.We propose that this "barcode" of 9 genes will be a useful initial guide to researchers in the LAB field to indicate an organism's ability to occupy a specific niche.
Collections Ireland -> Teagasc -> PubMed

Full list of authors on original publication

Tom Beresford, R Paul Ross, Gerald F Fitzgerald, Michael Callanan, Pawel Kaleta, Lydia Slattery, Olivia McAuliffe, Amaia Sangrador-Vegas, John O'Callaghan, Orla O'Sullivan

Experts in our system

1
Tom P Beresford
Teagasc
Total Publications: 32
 
2
R Paul Ross
Teagasc
Total Publications: 452
 
3
Gerald F Fitzgerald
Teagasc
Total Publications: 208
 
4
Olivia McAuliffe
Teagasc
Total Publications: 69
 
5
John O'Callaghan
Teagasc
Total Publications: 29
 
6
Orla O'Sullivan
Teagasc
Total Publications: 92