An assemblage of Frankia Cluster II strains from California contains the canonical nod genes and also the sulfotransferase gene nodH

Nguyen TV, Wibberg D, Battenberg K, Blom J, Vanden Heuvel B, Berry AM, Kalinowski J, Pawlowski K (2016)
BMC Genomics 17: 796.

Zeitschriftenaufsatz | Veröffentlicht| Englisch
 
Download
Es wurde kein Volltext hochgeladen. Nur Publikationsnachweis!
Autor/in
Nguyen, Thanh Van; Wibberg, DanielUniBi; Battenberg, Kai; Blom, JochenUniBi; Vanden Heuvel, Brian; Berry, Alison M.; Kalinowski, JörnUniBi; Pawlowski, Katharina
Abstract / Bemerkung
Background: The ability to establish root nodule symbioses is restricted to four different plant orders. Soil actinobacteria of the genus Frankia can establish a symbiotic relationship with a diverse group of plants within eight different families from three different orders, the Cucurbitales, Fagales and Rosales. Phylogenetically, Frankia strains can be divided into four clusters, three of which (I, II, III) contain symbiotic strains. Members of Cluster II nodulate the broadest range of host plants with species from four families from two different orders, growing on six continents. Two Cluster II genomes were sequenced thus far, both from Asia. Results: In this paper we present the first Frankia cluster II genome from North America (California), Dg2, which represents a metagenome of two major and one minor strains. A phylogenetic analysis of the core genomes of 16 Frankia strains shows that Cluster II the ancestral group in the genus, also ancestral to the non-symbiotic Cluster IV. Dg2 contains the canonical nod genes nodABC for the production of lipochitooligosaccharide Nod factors, but also two copies of the sulfotransferase gene nodH. In rhizobial systems, sulfation of Nod factors affects their host specificity and their stability. Conclusions: A comparison with the nod gene region of the previously sequenced Dg1 genome from a Cluster II strain from Pakistan shows that the common ancestor of both strains should have contained nodABC and nodH. Phylogenetically, Dg2 NodH proteins are sister to rhizobial NodH proteins. A glnA-based phylogenetic analysis of all Cluster II strains sampled thus far supports the hypothesis that Cluster II Frankia strains came to North America with Datisca glomerata following the Madrean-Tethyan pattern.
Stichworte
Frankia; Uncultured; Datisca glomerata; nodABC; nodH; mce
Erscheinungsjahr
2016
Zeitschriftentitel
BMC Genomics
Band
17
Art.-Nr.
796
ISSN
1471-2164
Page URI
https://pub.uni-bielefeld.de/record/2906720

Zitieren

Nguyen TV, Wibberg D, Battenberg K, et al. An assemblage of Frankia Cluster II strains from California contains the canonical nod genes and also the sulfotransferase gene nodH. BMC Genomics. 2016;17: 796.
Nguyen, T. V., Wibberg, D., Battenberg, K., Blom, J., Vanden Heuvel, B., Berry, A. M., Kalinowski, J., et al. (2016). An assemblage of Frankia Cluster II strains from California contains the canonical nod genes and also the sulfotransferase gene nodH. BMC Genomics, 17, 796. doi:10.1186/s12864-016-3140-1
Nguyen, T. V., Wibberg, D., Battenberg, K., Blom, J., Vanden Heuvel, B., Berry, A. M., Kalinowski, J., and Pawlowski, K. (2016). An assemblage of Frankia Cluster II strains from California contains the canonical nod genes and also the sulfotransferase gene nodH. BMC Genomics 17:796.
Nguyen, T.V., et al., 2016. An assemblage of Frankia Cluster II strains from California contains the canonical nod genes and also the sulfotransferase gene nodH. BMC Genomics, 17: 796.
T.V. Nguyen, et al., “An assemblage of Frankia Cluster II strains from California contains the canonical nod genes and also the sulfotransferase gene nodH”, BMC Genomics, vol. 17, 2016, : 796.
Nguyen, T.V., Wibberg, D., Battenberg, K., Blom, J., Vanden Heuvel, B., Berry, A.M., Kalinowski, J., Pawlowski, K.: An assemblage of Frankia Cluster II strains from California contains the canonical nod genes and also the sulfotransferase gene nodH. BMC Genomics. 17, : 796 (2016).
Nguyen, Thanh Van, Wibberg, Daniel, Battenberg, Kai, Blom, Jochen, Vanden Heuvel, Brian, Berry, Alison M., Kalinowski, Jörn, and Pawlowski, Katharina. “An assemblage of Frankia Cluster II strains from California contains the canonical nod genes and also the sulfotransferase gene nodH”. BMC Genomics 17 (2016): 796.

12 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

Draft genome sequence of the symbiotic Frankia sp. strain BMG5.30 isolated from root nodules of Coriaria myrtifolia in Tunisia.
Gueddou A, Swanson E, Hezbri K, Nouioui I, Ktari A, Simpson S, Morris K, Kelley Thomas W, Ghodhbane-Gtari F, Gtari M, Tisa LS., Antonie Van Leeuwenhoek 112(1), 2019
PMID: 30069723
An update on the taxonomy of the genus Frankia Brunchorst, 1886, 174AL.
Gtari M, Nouioui I, Sarkar I, Ghodhbane-Gtari F, Tisa LS, Sen A, Klenk HP., Antonie Van Leeuwenhoek 112(1), 2019
PMID: 30232679
Comparative genomics of the nonlegume Parasponia reveals insights into evolution of nitrogen-fixing rhizobium symbioses.
van Velzen R, Holmer R, Bu F, Rutten L, van Zeijl A, Liu W, Santuari L, Cao Q, Sharma T, Shen D, Roswanjaya Y, Wardhani TAK, Kalhor MS, Jansen J, van den Hoogen J, Güngör B, Hartog M, Hontelez J, Verver J, Yang WC, Schijlen E, Repin R, Schilthuizen M, Schranz ME, Heidstra R, Miyata K, Fedorova E, Kohlen W, Bisseling T, Smit S, Geurts R., Proc Natl Acad Sci U S A 115(20), 2018
PMID: 29717040
Frankia canadensis sp. nov., isolated from root nodules of Alnus incana subspecies rugosa.
Normand P, Nouioui I, Pujic P, Fournier P, Dubost A, Schwob G, Klenk HP, Nguyen A, Abrouk D, Herrera-Belaroussi A, Pothier JF, Pflüger V, Fernandez MP., Int J Syst Evol Microbiol 68(9), 2018
PMID: 30059001
Actinorhizal Signaling Molecules: Frankia Root Hair Deforming Factor Shares Properties With NIN Inducing Factor.
Cissoko M, Hocher V, Gherbi H, Gully D, Carré-Mlouka A, Sane S, Pignoly S, Champion A, Ngom M, Pujic P, Fournier P, Gtari M, Swanson E, Pesce C, Tisa LS, Sy MO, Svistoonoff S., Front Plant Sci 9(), 2018
PMID: 30405656
Comparative Analysis of the Nodule Transcriptomes of Ceanothus thyrsiflorus (Rhamnaceae, Rosales) and Datisca glomerata (Datiscaceae, Cucurbitales).
Salgado MG, van Velzen R, Nguyen TV, Battenberg K, Berry AM, Lundin D, Pawlowski K., Front Plant Sci 9(), 2018
PMID: 30487804
Host Plant Compatibility Shapes the Proteogenome of Frankia coriariae.
Ktari A, Gueddou A, Nouioui I, Miotello G, Sarkar I, Ghodhbane-Gtari F, Sen A, Armengaud J, Gtari M., Front Microbiol 8(), 2017
PMID: 28512450
Proposal of 'Candidatus Frankia californiensis', the uncultured symbiont in nitrogen-fixing root nodules of a phylogenetically broad group of hosts endemic to western North America.
Normand P, Nguyen TV, Battenberg K, Berry AM, Heuvel BV, Fernandez MP, Pawlowski K., Int J Syst Evol Microbiol 67(10), 2017
PMID: 28884663

77 References

Daten bereitgestellt von Europe PubMed Central.

Genome Sequence of the Atypical Symbiotic Frankia R43 Strain, a Nitrogen-Fixing and Hydrogen-Producing Actinobacterium.
Pujic P, Bolotin A, Fournier P, Sorokin A, Lapidus A, Richau KH, Briolay J, Mebarki F, Normand P, Sellstedt A., Genome Announc 3(6), 2015
PMID: 26607894
Arbuscular mycorrhiza: the mother of plant root endosymbioses.
Parniske M., Nat. Rev. Microbiol. 6(10), 2008
PMID: 18794914
Mce4F Mycobacterium tuberculosis protein peptides can inhibit invasion of human cell lines.
Rodriguez DC, Ocampo M, Varela Y, Curtidor H, Patarroyo MA, Patarroyo ME., Pathog Dis 73(3), 2014
PMID: 25743470
Permanent Draft Genome Sequences for Two Variants of Frankia sp. Strain CpI1, the First Frankia Strain Isolated from Root Nodules of Comptonia peregrina.
Oshone R, Hurst SG 4th, Abebe-Akele F, Simpson S, Morris K, Thomas WK, Tisa LS., Genome Announc 4(1), 2016
PMID: 26769948
Nod Factor-Independent Nodulation in Aeschynomene evenia Required the Common Plant-Microbe Symbiotic Toolkit.
Fabre S, Gully D, Poitout A, Patrel D, Arrighi JF, Giraud E, Czernic P, Cartieaux F., Plant Physiol. 169(4), 2015
PMID: 26446590
r2cat: synteny plots and comparative assembly.
Husemann P, Stoye J., Bioinformatics 26(4), 2009
PMID: 20015948
antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences.
Medema MH, Blin K, Cimermancic P, de Jager V, Zakrzewski P, Fischbach MA, Weber T, Takano E, Breitling R., Nucleic Acids Res. 39(Web Server issue), 2011
PMID: 21672958
Metagenome analyses reveal the influence of the inoculant Lactobacillus buchneri CD034 on the microbial community involved in grass ensiling.
Eikmeyer FG, Kofinger P, Poschenel A, Junemann S, Zakrzewski M, Heinl S, Mayrhuber E, Grabherr R, Puhler A, Schwab H, Schluter A., J. Biotechnol. 167(3), 2013
PMID: 23880441
Cultivating the uncultured: growing the recalcitrant cluster-2 Frankia strains.
Gtari M, Ghodhbane-Gtari F, Nouioui I, Ktari A, Hezbri K, Mimouni W, Sbissi I, Ayari A, Yamanaka T, Normand P, Tisa LS, Boudabous A., Sci Rep 5(), 2015
PMID: 26287281
An intermolecular binding mechanism involving multiple LysM domains mediates carbohydrate recognition by an endopeptidase.
Wong JE, Midtgaard SR, Gysel K, Thygesen MB, Sorensen KK, Jensen KJ, Stougaard J, Thirup S, Blaise M., Acta Crystallogr. D Biol. Crystallogr. 71(Pt 3), 2015
PMID: 25760608
Draft Genome Sequence of Frankia sp. Strain Thr, a Nitrogen-Fixing Actinobacterium Isolated from the Root Nodules of Casuarina cunninghamiana Grown in Egypt.
Hurst SG 4th, Oshone R, Ghodhbane-Gtari F, Morris K, Abebe-Akele F, Thomas WK, Ktari A, Salem K, Mansour S, Gtari M, Tisa LS., Genome Announc 2(3), 2014
PMID: 24855310
Chitinase-resistant hydrophilic symbiotic factors secreted by Frankia activate both Ca(2+) spiking and NIN gene expression in the actinorhizal plant Casuarina glauca.
Chabaud M, Gherbi H, Pirolles E, Vaissayre V, Fournier J, Moukouanga D, Franche C, Bogusz D, Tisa LS, Barker DG, Svistoonoff S., New Phytol. 209(1), 2015
PMID: 26484850
High-quality genome sequence of Pichia pastoris CBS7435.
Kuberl A, Schneider J, Thallinger GG, Anderl I, Wibberg D, Hajek T, Jaenicke S, Brinkrolf K, Goesmann A, Szczepanowski R, Puhler A, Schwab H, Glieder A, Pichler H., J. Biotechnol. 154(4), 2011
PMID: 21575661
DNA-DNA hybridization values and their relationship to whole-genome sequence similarities.
Goris J, Konstantinidis KT, Klappenbach JA, Coenye T, Vandamme P, Tiedje JM., Int. J. Syst. Evol. Microbiol. 57(Pt 1), 2007
PMID: 17220447
Development of a Rhizoctonia solani AG1-IB Specific Gene Model Enables Comparative Genome Analyses between Phytopathogenic R. solani AG1-IA, AG1-IB, AG3 and AG8 Isolates.
Wibberg D, Rupp O, Blom J, Jelonek L, Krober M, Verwaaijen B, Goesmann A, Albaum S, Grosch R, Puhler A, Schluter A., PLoS ONE 10(12), 2015
PMID: 26690577
Complete genome sequencing of Agrobacterium sp. H13-3, the former Rhizobium lupini H13-3, reveals a tripartite genome consisting of a circular and a linear chromosome and an accessory plasmid but lacking a tumor-inducing Ti-plasmid.
Wibberg D, Blom J, Jaenicke S, Kollin F, Rupp O, Scharf B, Schneiker-Bekel S, Sczcepanowski R, Goesmann A, Setubal JC, Schmitt R, Puhler A, Schluter A., J. Biotechnol. 155(1), 2011
PMID: 21329740
A single evolutionary innovation drives the deep evolution of symbiotic N2-fixation in angiosperms.
Werner GD, Cornwell WK, Sprent JI, Kattge J, Kiers ET., Nat Commun 5(), 2014
PMID: 24912610
Draft Genome Sequence of Frankia sp. Strain BMG5.12, a Nitrogen-Fixing Actinobacterium Isolated from Tunisian Soils.
Nouioui I, Beauchemin N, Cantor MN, Chen A, Detter JC, Furnholm T, Ghodhbane-Gtari F, Goodwin L, Gtari M, Han C, Han J, Huntemann M, Hua SX, Ivanova N, Kyrpides N, Markowitz V, Mavrommatis K, Mikhailova N, Nordberg HP, Ovchinnikova G, Pagani I, Pati A, Sen A, Sur S, Szeto E, Thakur S, Wall L, Wei CL, Woyke T, Tisa LS., Genome Announc 1(4), 2013
PMID: 23846272
Different dynamics of genome content shuffling among host-specificity groups of the symbiotic actinobacterium Frankia.
Kucho K, Yamanaka T, Sasakawa H, Mansour SR, Uchiumi T., BMC Genomics 15(), 2014
PMID: 25038796
Mammalian cell entry genes in Streptomyces may provide clues to the evolution of bacterial virulence.
Clark LC, Seipke RF, Prieto P, Willemse J, van Wezel GP, Hutchings MI, Hoskisson PA., Sci Rep 3(), 2013
PMID: 23346366
Permanent Draft Genome Sequence of Frankia sp. Strain ACN1ag, a Nitrogen-Fixing Actinobacterium Isolated from the Root Nodules of Alnus glutinosa.
Swanson E, Oshone R, Simpson S, Morris K, Abebe-Akele F, Thomas WK, Tisa LS., Genome Announc 3(6), 2015
PMID: 26679592
Do Mediterranean-type ecosystems have a common history?--insights from the Buckthorn family (Rhamnaceae).
Onstein RE, Carter RJ, Xing Y, Richardson JE, Linder HP., Evolution 69(3), 2015
PMID: 25611684
The complete genome sequence of the acarbose producer Actinoplanes sp. SE50/110.
Schwientek P, Szczepanowski R, Ruckert C, Kalinowski J, Klein A, Selber K, Wehmeier UF, Stoye J, Puhler A., BMC Genomics 13(), 2012
PMID: 22443545
Trimmomatic: a flexible trimmer for Illumina sequence data.
Bolger AM, Lohse M, Usadel B., Bioinformatics 30(15), 2014
PMID: 24695404
Draft genome sequence of Frankia sp. strain CN3, an atypical, noninfective (Nod-) ineffective (Fix-) isolate from Coriaria nepalensis.
Ghodhbane-Gtari F, Beauchemin N, Bruce D, Chain P, Chen A, Walston Davenport K, Deshpande S, Detter C, Furnholm T, Goodwin L, Gtari M, Han C, Han J, Huntemann M, Ivanova N, Kyrpides N, Land ML, Markowitz V, Mavrommatis K, Nolan M, Nouioui I, Pagani I, Pati A, Pitluck S, Santos CL, Sen A, Sur S, Szeto E, Tavares F, Teshima H, Thakur S, Wall L, Woyke T, Tisa LS., Genome Announc 1(2), 2013
PMID: 23516212
LysM-type mycorrhizal receptor recruited for rhizobium symbiosis in nonlegume Parasponia.
Op den Camp R, Streng A, De Mita S, Cao Q, Polone E, Liu W, Ammiraju JS, Kudrna D, Wing R, Untergasser A, Bisseling T, Geurts R., Science 331(6019), 2010
PMID: 21205637
Genome sequence of "Candidatus Frankia datiscae" Dg1, the uncultured microsymbiont from nitrogen-fixing root nodules of the dicot Datisca glomerata.
Persson T, Benson DR, Normand P, Vanden Heuvel B, Pujic P, Chertkov O, Teshima H, Bruce DC, Detter C, Tapia R, Han S, Han J, Woyke T, Pitluck S, Pennacchio L, Nolan M, Ivanova N, Pati A, Land ML, Pawlowski K, Berry AM., J. Bacteriol. 193(24), 2011
PMID: 22123767
Establishment and interpretation of the genome sequence of the phytopathogenic fungus Rhizoctonia solani AG1-IB isolate 7/3/14.
Wibberg D, Jelonek L, Rupp O, Hennig M, Eikmeyer F, Goesmann A, Hartmann A, Borriss R, Grosch R, Puhler A, Schluter A., J. Biotechnol. 167(2), 2012
PMID: 23280342
MEGAN analysis of metagenomic data.
Huson DH, Auch AF, Qi J, Schuster SC., Genome Res. 17(3), 2007
PMID: 17255551
The independent acquisition of plant root nitrogen-fixing symbiosis in Fabids recruited the same genetic pathway for nodule organogenesis.
Svistoonoff S, Benabdoun FM, Nambiar-Veetil M, Imanishi L, Vaissayre V, Cesari S, Diagne N, Hocher V, de Billy F, Bonneau J, Wall L, Ykhlef N, Rosenberg C, Bogusz D, Franche C, Gherbi H., PLoS ONE 8(5), 2013
PMID: 23741336
An ABC transport system that maintains lipid asymmetry in the gram-negative outer membrane.
Malinverni JC, Silhavy TJ., Proc. Natl. Acad. Sci. U.S.A. 106(19), 2009
PMID: 19383799
Genome characteristics of facultatively symbiotic Frankia sp. strains reflect host range and host plant biogeography.
Normand P, Lapierre P, Tisa LS, Gogarten JP, Alloisio N, Bagnarol E, Bassi CA, Berry AM, Bickhart DM, Choisne N, Couloux A, Cournoyer B, Cruveiller S, Daubin V, Demange N, Francino MP, Goltsman E, Huang Y, Kopp OR, Labarre L, Lapidus A, Lavire C, Marechal J, Martinez M, Mastronunzio JE, Mullin BC, Niemann J, Pujic P, Rawnsley T, Rouy Z, Schenowitz C, Sellstedt A, Tavares F, Tomkins JP, Vallenet D, Valverde C, Wall LG, Wang Y, Medigue C, Benson DR., Genome Res. 17(1), 2006
PMID: 17151343
Complete genome sequence of the methanogenic neotype strain Methanobacterium formicicum MF(T.).
Maus I, Stantscheff R, Wibberg D, Stolze Y, Winkler A, Puhler A, Konig H, Schluter A., J. Biotechnol. 192 Pt A(), 2014
PMID: 25270020
GenDB--an open source genome annotation system for prokaryote genomes.
Meyer F, Goesmann A, McHardy AC, Bartels D, Bekel T, Clausen J, Kalinowski J, Linke B, Rupp O, Giegerich R, Puhler A., Nucleic Acids Res. 31(8), 2003
PMID: 12682369
Fungal lipochitooligosaccharide symbiotic signals in arbuscular mycorrhiza.
Maillet F, Poinsot V, Andre O, Puech-Pages V, Haouy A, Gueunier M, Cromer L, Giraudet D, Formey D, Niebel A, Martinez EA, Driguez H, Becard G, Denarie J., Nature 469(7328), 2011
PMID: 21209659
Insights into the completely annotated genome of Lactobacillus buchneri CD034, a strain isolated from stable grass silage.
Heinl S, Wibberg D, Eikmeyer F, Szczepanowski R, Blom J, Linke B, Goesmann A, Grabherr R, Schwab H, Puhler A, Schluter A., J. Biotechnol. 161(2), 2012
PMID: 22465289
Molecular phylogeny of the genus Frankia and related genera and emendation of the family Frankiaceae.
Normand P, Orso S, Cournoyer B, Jeannin P, Chapelon C, Dawson J, Evtushenko L, Misra AK., Int. J. Syst. Bacteriol. 46(1), 1996
PMID: 8573482
Draft Genome Sequence of Frankia sp. Strain BCU110501, a Nitrogen-Fixing Actinobacterium Isolated from Nodules of Discaria trinevis.
Wall LG, Beauchemin N, Cantor MN, Chaia E, Chen A, Detter JC, Furnholm T, Ghodhbane-Gtari F, Goodwin L, Gtari M, Han C, Han J, Huntemann M, Hua SX, Ivanova N, Kyrpides N, Markowitz V, Mavrommatis K, Mikhailova N, Nordberg HP, Nouioui I, Ovchinnikova G, Pagani I, Pati A, Sen A, Sur S, Szeto E, Thakur S, Wei CL, Woyke T, Tisa LS., Genome Announc 1(4), 2013
PMID: 23846281
Molecular phylogeny of Coriaria, with special emphasis on the disjunct distribution.
Yokoyama J, Suzuki M, Iwatsuki K, Hasebe M., Mol. Phylogenet. Evol. 14(1), 2000
PMID: 10631039
Complete genome of the cellulolytic thermophile Acidothermus cellulolyticus 11B provides insights into its ecophysiological and evolutionary adaptations.
Barabote RD, Xie G, Leu DH, Normand P, Necsulea A, Daubin V, Medigue C, Adney WS, Xu XC, Lapidus A, Parales RE, Detter C, Pujic P, Bruce D, Lavire C, Challacombe JF, Brettin TS, Berry AM., Genome Res. 19(6), 2009
PMID: 19270083
SymRK defines a common genetic basis for plant root endosymbioses with arbuscular mycorrhiza fungi, rhizobia, and Frankiabacteria.
Gherbi H, Markmann K, Svistoonoff S, Estevan J, Autran D, Giczey G, Auguy F, Peret B, Laplaze L, Franche C, Parniske M, Bogusz D., Proc. Natl. Acad. Sci. U.S.A. 105(12), 2008
PMID: 18316735
The actinobacterial mce4 locus encodes a steroid transporter.
Mohn WW, van der Geize R, Stewart GR, Okamoto S, Liu J, Dijkhuizen L, Eltis LD., J. Biol. Chem. 283(51), 2008
PMID: 18955493
ProtTest 3: fast selection of best-fit models of protein evolution.
Darriba D, Taboada GL, Doallo R, Posada D., Bioinformatics 27(8), 2011
PMID: 21335321
Permanent Draft Genome Sequence for Frankia sp. Strain CeD, a Nitrogen-Fixing Actinobacterium Isolated from the Root Nodules of Casuarina equistifolia Grown in Senegal.
Ngom M, Oshone R, Hurst SG 4th, Abebe-Akele F, Simpson S, Morris K, Sy MO, Champion A, Thomas WK, Tisa LS., Genome Announc 4(2), 2016
PMID: 27056238
EDGAR: a software framework for the comparative analysis of prokaryotic genomes.
Blom J, Albaum SP, Doppmeier D, Puhler A, Vorholter FJ, Zakrzewski M, Goesmann A., BMC Bioinformatics 10(), 2009
PMID: 19457249
Past climate change and plant evolution in Western North America: a case study in Rosaceae.
Topel M, Antonelli A, Yesson C, Eriksen B., PLoS ONE 7(12), 2012
PMID: 23236369
Draft Genome Sequence of Frankia sp. Strain DC12, an Atypical, Noninfective, Ineffective Isolate from Datisca cannabina.
Tisa LS, Beauchemin N, Cantor MN, Furnholm T, Ghodhbane-Gtari F, Goodwin L, Copeland A, Gtari M, Huntemann M, Ivanova N, Kyrpides N, Markowitz V, Mavrommatis K, Mikhailova N, Nouioui I, Oshone R, Ovchinnikova G, Pagani I, Palaniappan K, Pati A, Sen A, Shapiro N, Szeto E, Wall L, Wishart J, Woyke T., Genome Announc 3(4), 2015
PMID: 26251504
Absence of cospeciation between the uncultured Frankia microsymbionts and the disjunct actinorhizal Coriaria species.
Nouioui I, Ghodhbane-Gtari F, Fernandez MP, Boudabous A, Normand P, Gtari M., Biomed Res Int 2014(), 2014
PMID: 24864264
Bacterial-induced calcium oscillations are common to nitrogen-fixing associations of nodulating legumes and nonlegumes.
Granqvist E, Sun J, Op den Camp R, Pujic P, Hill L, Normand P, Morris RJ, Downie JA, Geurts R, Oldroyd GE., New Phytol. 207(3), 2015
PMID: 26010117
Genome features of the endophytic actinobacterium Micromonospora lupini strain Lupac 08: on the process of adaptation to an endophytic life style?
Trujillo ME, Bacigalupe R, Pujic P, Igarashi Y, Benito P, Riesco R, Medigue C, Normand P., PLoS ONE 9(9), 2014
PMID: 25268993
Draft Genome Sequence of Frankia sp. Strain BMG5.23, a Salt-Tolerant Nitrogen-Fixing Actinobacterium Isolated from the Root Nodules of Casuarina glauca Grown in Tunisia.
Ghodhbane-Gtari F, Hurst SG 4th, Oshone R, Morris K, Abebe-Akele F, Thomas WK, Ktari A, Salem K, Gtari M, Tisa LS., Genome Announc 2(3), 2014
PMID: 24874687
The complete genomic sequence of Nocardia farcinica IFM 10152.
Ishikawa J, Yamashita A, Mikami Y, Hoshino Y, Kurita H, Hotta K, Shiba T, Hattori M., Proc. Natl. Acad. Sci. U.S.A. 101(41), 2004
PMID: 15466710
Genomic insights that advance the species definition for prokaryotes.
Konstantinidis KT, Tiedje JM., Proc. Natl. Acad. Sci. U.S.A. 102(7), 2005
PMID: 15701695
Mauve: multiple alignment of conserved genomic sequence with rearrangements.
Darling AC, Mau B, Blattner FR, Perna NT., Genome Res. 14(7), 2004
PMID: 15231754
Complete genome sequence of Mycobacterium sp. strain (Spyr1) and reclassification to Mycobacterium gilvum Spyr1.
Kallimanis A, Karabika E, Mavromatis K, Lapidus A, Labutti KM, Liolios K, Ivanova N, Goodwin L, Woyke T, Velentzas AD, Perisynakis A, Ouzounis CC, Kyrpides NC, Koukkou AI, Drainas C., Stand Genomic Sci 5(1), 2011
PMID: 22180818
Candidatus Frankia Datiscae Dg1, the Actinobacterial Microsymbiont of Datisca glomerata, Expresses the Canonical nod Genes nodABC in Symbiosis with Its Host Plant.
Persson T, Battenberg K, Demina IV, Vigil-Stenman T, Vanden Heuvel B, Pujic P, Facciotti MT, Wilbanks EG, O'Brien A, Fournier P, Cruz Hernandez MA, Mendoza Herrera A, Medigue C, Normand P, Pawlowski K, Berry AM., PLoS ONE 10(5), 2015
PMID: 26020781
New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0.
Guindon S, Dufayard JF, Lefort V, Anisimova M, Hordijk W, Gascuel O., Syst. Biol. 59(3), 2010
PMID: 20525638
Complete genome sequence of the hydrogenotrophic Archaeon Methanobacterium sp. Mb1 isolated from a production-scale biogas plant.
Maus I, Wibberg D, Stantscheff R, Cibis K, Eikmeyer FG, Konig H, Puhler A, Schluter A., J. Biotechnol. 168(4), 2013
PMID: 24184088
antiSMASH 2.0--a versatile platform for genome mining of secondary metabolite producers.
Blin K, Medema MH, Kazempour D, Fischbach MA, Breitling R, Takano E, Weber T., Nucleic Acids Res. 41(Web Server issue), 2013
PMID: 23737449
ReadXplorer--visualization and analysis of mapped sequences.
Hilker R, Stadermann KB, Doppmeier D, Kalinowski J, Stoye J, Straube J, Winnebald J, Goesmann A., Bioinformatics 30(16), 2014
PMID: 24790157
Primer3Plus, an enhanced web interface to Primer3.
Untergasser A, Nijveen H, Rao X, Bisseling T, Geurts R, Leunissen JA., Nucleic Acids Res. 35(Web Server issue), 2007
PMID: 17485472
Draft genome sequence of Frankia sp. strain QA3, a nitrogen-fixing actinobacterium isolated from the root nodule of Alnus nitida.
Sen A, Beauchemin N, Bruce D, Chain P, Chen A, Walston Davenport K, Deshpande S, Detter C, Furnholm T, Ghodbhane-Gtari F, Goodwin L, Gtari M, Han C, Han J, Huntemann M, Ivanova N, Kyrpides N, Land ML, Markowitz V, Mavrommatis K, Nolan M, Nouioui I, Pagani I, Pati A, Pitluck S, Santos CL, Sur S, Szeto E, Tavares F, Teshima H, Thakur S, Wall L, Woyke T, Wishart J, Tisa LS., Genome Announc 1(2), 2013
PMID: 23516220
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ., Nucleic Acids Res. 25(17), 1997
PMID: 9254694
Chloroplast gene sequence data suggest a single origin of the predisposition for symbiotic nitrogen fixation in angiosperms.
Soltis DE, Soltis PS, Morgan DR, Swensen SM, Mullin BC, Dowd JM, Martin PG., Proc. Natl. Acad. Sci. U.S.A. 92(7), 1995
PMID: 7708699

Export

Markieren/ Markierung löschen
Markierte Publikationen

Open Data PUB

Web of Science

Dieser Datensatz im Web of Science®

Quellen

PMID: 27729005
PubMed | Europe PMC

Suchen in

Google Scholar