IRIS publication 721327
Comparative Genomics of Lactic Acid Bacteria Reveals A Niche-Specific Gene Set
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TY - JOUR - O'Sullivan, O, O'Callaghan, J, Sangrador-Vegas, A, McAuliffe, O, Slattery, L, Kaleta, P, Callanan, M, Fitzgerald, GF, Ross, RP, Beresford, T - 2009 - March - BMC Microbiology - Comparative Genomics of Lactic Acid Bacteria Reveals A Niche-Specific Gene Set - Validated - () - 9 - NA - Background: The recently sequenced genome of Lactobacillus helveticus DPC4571 [1] revealed a dairy organism with significant homology (75% of genes are homologous) to a probiotic bacteria Lb. acidophilus NCFM [2]. This led us to hypothesise that a group of genes could be determined which could define an organism's niche.. Results: 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.. Conclusion: 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.. - DOI 10.1186/1471-2180-9-50 DA - 2009/03 ER -
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@article{V721327, = {O'Sullivan, O and O'Callaghan, J and Sangrador-Vegas, A and McAuliffe, O and Slattery, L and Kaleta, P and Callanan, M and Fitzgerald, GF and Ross, RP and Beresford, T }, = {2009}, = {March}, = {BMC Microbiology}, = {Comparative Genomics of Lactic Acid Bacteria Reveals A Niche-Specific Gene Set}, = {Validated}, = {()}, = {9}, = {NA}, = {{Background: The recently sequenced genome of Lactobacillus helveticus DPC4571 [1] revealed a dairy organism with significant homology (75% of genes are homologous) to a probiotic bacteria Lb. acidophilus NCFM [2]. This led us to hypothesise that a group of genes could be determined which could define an organism's niche.. Results: 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.. Conclusion: 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..}}, = {DOI 10.1186/1471-2180-9-50}, source = {IRIS} }
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AUTHORS | O'Sullivan, O, O'Callaghan, J, Sangrador-Vegas, A, McAuliffe, O, Slattery, L, Kaleta, P, Callanan, M, Fitzgerald, GF, Ross, RP, Beresford, T | ||
YEAR | 2009 | ||
MONTH | March | ||
JOURNAL_CODE | BMC Microbiology | ||
TITLE | Comparative Genomics of Lactic Acid Bacteria Reveals A Niche-Specific Gene Set | ||
STATUS | Validated | ||
TIMES_CITED | () | ||
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VOLUME | 9 | ||
ISSUE | NA | ||
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ABSTRACT | Background: The recently sequenced genome of Lactobacillus helveticus DPC4571 [1] revealed a dairy organism with significant homology (75% of genes are homologous) to a probiotic bacteria Lb. acidophilus NCFM [2]. This led us to hypothesise that a group of genes could be determined which could define an organism's niche.. Results: 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.. Conclusion: 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.. | ||
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DOI_LINK | DOI 10.1186/1471-2180-9-50 | ||
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