Multilocus sequence analysis of root nodule isolates from Lotus arabicus (Senegal), Lotus creticus, Argyrolobium uniflorum and Medicago sativa (Tunisia) and description of Ensifer numidicus sp. nov. and Ensifer garamanticus sp. nov.
Nine isolates from Argyrolobium uniflorum, Lotus creticus , Medicago sativa (Tunisia) and Lotus arabicus (Senegal) were analysed by multilocus sequence analysis (MLSA) of five housekeeping genes (recA, atpD, glnA, gltA and thrC), the 16S rRNA gene and the nodulation gene nodA. Analysis of the individual and concatenated gene sequences demonstrated that the nine new strains constituted three stable, well-supported (bootstrap and gene sequence similarity values) monophyletic clusters, A, B and C, all belonging to the branch of the genus Ensifer, regardless of the phylogenetic reconstruction method used (maximum likelihood, maximum-parsimony, neighbour-joining). The three groups were further characterized by API 100 auxanographic tests, host specificity and nodA gene sequence analysis. On the basis of these data, clusters A and C are suggested as representing two novel species within the genus Ensifer, for which the names Ensifer numidicus sp. nov. (type strain ORS 1407(T)=LMG 24690(T)=CIP 109850(T)) and Ensifer garamanticus sp. nov. (type strain ORS 1400(T)=LMG 24692(T)=CIP 109916(T)) are proposed. The cluster B strains were assigned to Ensifer adhaerens genomovar A.
Merabet
C
C
IRD, UMR 113 Symbioses Tropicales et Méditerranéennes F-34398 Montpellier, France.|Laboratoire de Rhizobiologie, Université d'Oran, Es-Senia, Algeria.
Martens
M
M
Laboratorium voor Microbiologie (WE10), Universiteit Gent, Belgium.
Mahdhi
M
M
Faculté des Sciences, Gabès, Tunisia.|IRD, UMR 113 Symbioses Tropicales et Méditerranéennes F-34398 Montpellier, France.
Zakhia
F
F
IRD, UMR 113 Symbioses Tropicales et Méditerranéennes F-34398 Montpellier, France.
Sy
A
A
IRD-UCAD-ISRA, Laboratoire Commun de Microbiologie, Dakar, Senegal, West Africa.
Le Roux
C
C
IRD, UMR 113 Symbioses Tropicales et Méditerranéennes F-34398 Montpellier, France.
Domergue
O
O
IRD, UMR 113 Symbioses Tropicales et Méditerranéennes F-34398 Montpellier, France.
Coopman
R
R
Laboratorium voor Microbiologie (WE10), Universiteit Gent, Belgium.
Bekki
A
A
Laboratoire de Rhizobiologie, Université d'Oran, Es-Senia, Algeria.
Mars
M
M
Faculté des Sciences, Gabès, Tunisia.
Willems
A
A
Laboratorium voor Microbiologie (WE10), Universiteit Gent, Belgium.
de Lajudie
P
P
IRD, UMR 113 Symbioses Tropicales et Méditerranéennes F-34398 Montpellier, France.
D001426:Bacterial Proteins / Q000235:genetics; D015373:Bacterial Typing Techniques; D004269:DNA, Bacterial / Q000235:genetics; D004275:DNA, Ribosomal / Q000235:genetics; D007887:Fabaceae / Q000382:microbiology*; D000070116:Lotus / Q000382:microbiology*; D029902:Medicago / Q000382:microbiology*; D008969:Molecular Sequence Data; D010802:Phylogeny; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D012230:Rhizobiaceae / Q000145:classification* / Q000235:genetics* / Q000302:isolation & purification / Q000378:metabolism; D053204:Root Nodules, Plant / Q000382:microbiology*; D017422:Sequence Analysis, DNA
D001426:Bacterial Proteins; D004269:DNA, Bacterial; D004275:DNA, Ribosomal; D012336:RNA, Ribosomal, 16S