The ins and outs of metal homeostasis by the root nodule actinobacterium Frankia
Identifieur interne : 000124 ( Main/Exploration ); précédent : 000123; suivant : 000125The ins and outs of metal homeostasis by the root nodule actinobacterium Frankia
Auteurs : Teal R. Furnholm [États-Unis] ; Louis S. Tisa [États-Unis]Source :
- BMC Genomics [ 1471-2164 ] ; 2014.
Abstract
Unlike most bacteria,
Each strain had a unique combination of metal import, binding, modification, and export genes that explain differences in patterns of metal resistance between strains.
The online version of this article (doi:10.1186/1471-2164-15-1092) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1186/1471-2164-15-1092
PubMed: 25495525
PubMed Central: 4531530
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">The ins and outs of metal homeostasis by the root nodule actinobacterium <italic>Frankia</italic></title><author><name sortKey="Furnholm, Teal R" sort="Furnholm, Teal R" uniqKey="Furnholm T" first="Teal R" last="Furnholm">Teal R. Furnholm</name><affiliation wicri:level="2"><nlm:aff id="Aff4">Department of Molecular, Cellular and Biomedical Sciences, University of New Hampshire, Durham, NH USA</nlm:aff><country>États-Unis</country><placeName><region type="state">New Hampshire</region></placeName><wicri:cityArea>Department of Molecular, Cellular and Biomedical Sciences, University of New Hampshire, Durham</wicri:cityArea></affiliation></author><author><name sortKey="Tisa, Louis S" sort="Tisa, Louis S" uniqKey="Tisa L" first="Louis S" last="Tisa">Louis S. Tisa</name><affiliation wicri:level="2"><nlm:aff id="Aff4">Department of Molecular, Cellular and Biomedical Sciences, University of New Hampshire, Durham, NH USA</nlm:aff><country>États-Unis</country><placeName><region type="state">New Hampshire</region></placeName><wicri:cityArea>Department of Molecular, Cellular and Biomedical Sciences, University of New Hampshire, Durham</wicri:cityArea></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">25495525</idno><idno type="pmc">4531530</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4531530</idno><idno type="RBID">PMC:4531530</idno><idno type="doi">10.1186/1471-2164-15-1092</idno><date when="2014">2014</date><idno type="wicri:Area/Pmc/Corpus">000094</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000094</idno><idno type="wicri:Area/Pmc/Curation">000093</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000093</idno><idno type="wicri:Area/Pmc/Checkpoint">000114</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">000114</idno><idno type="wicri:Area/Ncbi/Merge">000356</idno><idno type="wicri:Area/Ncbi/Curation">000356</idno><idno type="wicri:Area/Ncbi/Checkpoint">000356</idno><idno type="wicri:Area/Main/Merge">000124</idno><idno type="wicri:Area/Main/Curation">000124</idno><idno type="wicri:Area/Main/Exploration">000124</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">The ins and outs of metal homeostasis by the root nodule actinobacterium <italic>Frankia</italic></title><author><name sortKey="Furnholm, Teal R" sort="Furnholm, Teal R" uniqKey="Furnholm T" first="Teal R" last="Furnholm">Teal R. Furnholm</name><affiliation wicri:level="2"><nlm:aff id="Aff4">Department of Molecular, Cellular and Biomedical Sciences, University of New Hampshire, Durham, NH USA</nlm:aff><country>États-Unis</country><placeName><region type="state">New Hampshire</region></placeName><wicri:cityArea>Department of Molecular, Cellular and Biomedical Sciences, University of New Hampshire, Durham</wicri:cityArea></affiliation></author><author><name sortKey="Tisa, Louis S" sort="Tisa, Louis S" uniqKey="Tisa L" first="Louis S" last="Tisa">Louis S. Tisa</name><affiliation wicri:level="2"><nlm:aff id="Aff4">Department of Molecular, Cellular and Biomedical Sciences, University of New Hampshire, Durham, NH USA</nlm:aff><country>États-Unis</country><placeName><region type="state">New Hampshire</region></placeName><wicri:cityArea>Department of Molecular, Cellular and Biomedical Sciences, University of New Hampshire, Durham</wicri:cityArea></affiliation></author></analytic><series><title level="j">BMC Genomics</title><idno type="eISSN">1471-2164</idno><imprint><date when="2014">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p><italic>Frankia</italic> are actinobacteria that form a symbiotic nitrogen-fixing association with actinorhizal plants, and play a significant role in actinorhizal plant colonization of metal contaminated areas. Many <italic>Frankia</italic> strains are known to be resistant to several toxic metals and metalloids including Pb<sup>2+</sup>, Al<sup>+3</sup>, SeO<sub>2</sub>, Cu<sup>2+</sup>, AsO<sub>4</sub>, and Zn<sup>2+</sup>. With the availability of eight <italic>Frankia</italic> genome databases, comparative genomics approaches employing phylogeny, amino acid composition analysis, and synteny were used to identify metal homeostasis mechanisms in eight <italic>Frankia</italic> strains. Characterized genes from the literature and a meta-analysis of 18 heavy metal gene microarray studies were used for comparison.</p></sec><sec><title>Results</title><p>Unlike most bacteria, <italic>Frankia</italic> utilize all of the essential trace elements (Ni, Co, Cu, Se, Mo, B, Zn, Fe, and Mn) and have a comparatively high percentage of metalloproteins, particularly in the more metal resistant strains. Cation diffusion facilitators, being one of the few known metal resistance mechanisms found in the <italic>Frankia</italic> genomes, were strong candidates for general divalent metal resistance in all of the <italic>Frankia</italic> strains. Gene duplication and amino acid substitutions that enhanced the metal affinity of CopA and CopCD proteins may be responsible for the copper resistance found in some <italic>Frankia</italic> strains. CopA and a new potential metal transporter, DUF347, may be involved in the particularly high lead tolerance in <italic>Frankia</italic>. Selenite resistance involved an alternate sulfur importer (CysPUWA) that prevents sulfur starvation, and reductases to produce elemental selenium. The pattern of arsenate, but not arsenite, resistance was achieved by <italic>Frankia</italic> using the novel arsenite exporter (AqpS) previously identified in the nitrogen-fixing plant symbiont <italic>Sinorhizobium meliloti</italic>. Based on the presence of multiple tellurite resistance factors, a new metal resistance (tellurite) was identified and confirmed in <italic>Frankia</italic>.</p></sec><sec><title>Conclusions</title><p>Each strain had a unique combination of metal import, binding, modification, and export genes that explain differences in patterns of metal resistance between strains. <italic>Frankia</italic> has achieved similar levels of metal and metalloid resistance as bacteria from highly metal-contaminated sites. From a bioremediation standpoint, it is important to understand mechanisms that allow the endosymbiont to survive and infect actinorhizal plants in metal contaminated soils.</p></sec><sec><title>Electronic supplementary material</title><p>The online version of this article (doi:10.1186/1471-2164-15-1092) contains supplementary material, which is available to authorized users.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Chaia, Ee" uniqKey="Chaia E">EE Chaia</name></author><author><name sortKey="Wall, Lg" uniqKey="Wall L">LG Wall</name></author><author><name sortKey="Huss Danell, K" uniqKey="Huss Danell K">K Huss-Danell</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Santi, C" uniqKey="Santi C">C Santi</name></author><author><name sortKey="Bogusz, D" uniqKey="Bogusz D">D Bogusz</name></author><author><name sortKey="Franche, C" uniqKey="Franche C">C 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Up" uniqKey="Consortium U">UP Consortium</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Bateman, A" uniqKey="Bateman A">A Bateman</name></author><author><name sortKey="Coin, L" uniqKey="Coin L">L Coin</name></author><author><name sortKey="Durbin, R" uniqKey="Durbin R">R Durbin</name></author><author><name sortKey="Finn, Rd" uniqKey="Finn R">RD Finn</name></author><author><name sortKey="Hollich, V" uniqKey="Hollich V">V Hollich</name></author><author><name sortKey="Griffiths Jones, S" uniqKey="Griffiths Jones S">S Griffiths-Jones</name></author><author><name sortKey="Eddy, Sr" uniqKey="Eddy S">SR Eddy</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Ashburner, M" uniqKey="Ashburner M">M Ashburner</name></author><author><name sortKey="Ball, Ca" uniqKey="Ball C">CA Ball</name></author><author><name sortKey="Blake, Ja" uniqKey="Blake J">JA Blake</name></author><author><name sortKey="Botstein, D" uniqKey="Botstein D">D Botstein</name></author><author><name sortKey="Butler, H" uniqKey="Butler H">H Butler</name></author><author><name sortKey="Cherry, Jm" uniqKey="Cherry J">JM Cherry</name></author><author><name sortKey="Sherlock, G" uniqKey="Sherlock G">G Sherlock</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Tatusov, Rl" uniqKey="Tatusov R">RL Tatusov</name></author><author><name sortKey="Galperin, My" uniqKey="Galperin M">MY Galperin</name></author><author><name sortKey="Natale, Da" uniqKey="Natale D">DA Natale</name></author><author><name sortKey="Koonin, Ev" uniqKey="Koonin E">EV Koonin</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Hall, Ta" uniqKey="Hall T">TA Hall</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Kumar, S" uniqKey="Kumar S">S Kumar</name></author><author><name sortKey="Nei, M" uniqKey="Nei M">M Nei</name></author><author><name sortKey="Dudley, J" uniqKey="Dudley J">J Dudley</name></author><author><name sortKey="Tamura, K" uniqKey="Tamura K">K Tamura</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>États-Unis</li></country><region><li>New Hampshire</li></region></list><tree><country name="États-Unis"><region name="New Hampshire"><name sortKey="Furnholm, Teal R" sort="Furnholm, Teal R" uniqKey="Furnholm T" first="Teal R" last="Furnholm">Teal R. 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