Serendipitous discovery of a novel protostrongylid (Nematoda: Metastrongyloidea) in caribou, muskoxen, and moose from high latitudes of North America based on DNA sequence comparisons

2007 ◽  
Vol 85 (11) ◽  
pp. 1143-1156 ◽  
Author(s):  
Susan J. Kutz ◽  
Ingrid Asmundsson ◽  
Eric P. Hoberg ◽  
Greg D. Appleyard ◽  
Emily J. Jenkins ◽  
...  
Keyword(s):  
North America ◽  
Rangifer Tarandus ◽  
Novel Species ◽  
Alces Alces ◽  
Sequence Similarity ◽  
Distinct Species ◽  
Nuclear Ribosomal Dna ◽  
Internal Transcribed Spacer Region ◽  
Sequence Comparisons ◽  
Ovibos Moschatus

Fecal samples are often the only feasible means to assess diversity of parasites in wildlife; however, definitive identification of egg or larval stages in feces by morphology is rarely possible. We determined partial sequences from the second internal transcribed spacer region (ITS-2) of nuclear ribosomal DNA for first-stage, dorsal-spined larvae (DSL) in feces from caribou ( Rangifer tarandus tarandus (L., 1758), Rangifer tarandus caribou (Gmelin, 1788), Rangifer tarandus grantii (Allen, 1902)), muskoxen ( Ovibos moschatus moschatus (Zimmermann, 1780), Ovibos moschatus wardi Lydekker, 1900), moose ( Alces alces gigas Miller, 1899 and Alces alces andersoni Peterson, 1952), and from the tissue of one slug ( Deroceras laeve (Müller, 1774)) in Arctic–Subarctic North America. A previously uncharacterized, genetically distinct species was recognized based on sequences of 37 DSL from 19 ungulate hosts and the slug. Sequence similarity among individuals of this novel species was 91%–100%. For many individual DSL, paralogues of ITS-2 were detected. ITS-2 sequences from the novel species were 72%–77% similar to those of Varestrongylus alpenae (Dikmans, 1935) and 51%–61% similar to those of other protostrongylids known in North American and some Eurasian ungulates. Results indicate a discrete lineage of an undescribed protostrongylid infecting muskoxen, caribou, and moose from Alaska to Labrador. Sympatric infections with Parelaphostrongylus andersoni Prestwood, 1972 were found in three caribou herds.

scholarly journals Agromyces salentinus sp. nov. and Agromyces neolithicus sp. nov.

2005 ◽  
Vol 55 (1) ◽  
pp. 153-157 ◽  
Author(s):  
Valme Jurado ◽  
Ingrid Groth ◽  
Juan M. Gonzalez ◽  
Leonila Laiz ◽  
Cesareo Saiz-Jimenez
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Sequence Comparisons

A polyphasic study was carried out to clarify the taxonomic position of two Gram-positive bacteria isolated from soil samples of the Grotta dei Cervi (Italy), a relatively unexplored hypogean environment. The strains, 20-5T and 23-23T, showed phenotypic and phylogenetic characteristics that were consistent with their classification in the genus Agromyces. 16S rRNA gene sequence comparisons revealed that the two strains formed distinct phyletic lines within the genus Agromyces. Based on 16S rRNA gene sequence similarity, chemotaxonomic data and the results of DNA–DNA relatedness studies, it is proposed that the two isolates represent two novel species of the genus Agromyces. Pronounced differences in a broad range of phenotypic characteristics and DNA G+C content distinguished the two strains from each other and from previously described species of the genus Agromyces. Two novel species are proposed: Agromyces salentinus sp. nov. (type strain, 20-5T=HKI 0320T=DSM 16198T=NCIMB 13990T) and Agromyces neolithicus sp. nov. (type strain, 23-23T=HKI 0321T=DSM 16197T=NCIMB 13989T).

Roseomonas riguiloci sp. nov., isolated from wetland freshwater

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 3024-3029 ◽  
Author(s):  
Keun Sik Baik ◽  
Seong Chan Park ◽  
Han Na Choe ◽  
Se Na Kim ◽  
Jae-Hak Moon ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Rrna Gene Sequence ◽  
Sequence Comparisons ◽  
Content Type ◽  
Link Type ◽  
Taxonomic Approach

A non-motile, coccobacillus-shaped and pink pigmented bacterium, designated strain 03SU10-PT, was isolated from wetland freshwater (Woopo wetland, Republic of Korea). Cells were Gram reaction-negative and catalase- and oxidase-positive. The major fatty acids (>10 % of total) were C18 : 1ω7c and summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1ω7c). The predominant respiratory lipoquinone was Q-10. The DNA G+C content was 68 mol%. The major polar lipids were phosphatidylethanolamine, phosphatidylcholine and an unknown aminolipid. Spermidine, putrescine and 1,3-diaminopropane were the major polyamines. A phylogenetic tree based on 16S rRNA gene sequence comparisons showed that strain 03SU10-PT formed an evolutionary lineage within the radiation enclosing the members of the genus Roseomonas . The nearest neighbour to the novel strain was Roseomonas stagni HS-69T (96.3 % gene sequence similarity). The evidence provided by the polyphasic taxonomic approach used in this study indicated that strain 03SU10-PT could not be assigned to any recognized species; therefore a novel species is proposed, Roseomonas riguiloci sp. nov., with 03SU10-PT ( = KCTC 23339T = JCM 17520T) as the type strain.

scholarly journals Staphylococcus massiliensis sp. nov., isolated from a human brain abscess

2010 ◽  
Vol 60 (5) ◽  
pp. 1066-1072 ◽  
Author(s):  
Mouhamad Al Masalma ◽  
Didier Raoult ◽  
Véronique Roux
Keyword(s):  
Phylogenetic Analysis ◽  
Human Brain ◽  
Brain Abscess ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Sequence Comparisons ◽  
Taxonomic Approach ◽  
Staphylococcus Simulans

Gram-positive, catalase-positive, coagulase-negative, non-motile, non-fermentative and novobiocin-susceptible cocci were isolated from a human brain abscess sample (strain 5402776T). This novel strain was analysed by a polyphasic taxonomic approach. The respiratory quinones detected were MK-7 (93 %) and MK-6 (7 %) and the major fatty acids were C15 : 0 iso (60.5 %), C17 : 0 iso (8.96 %) C15 : 0 anteiso (7.93 %) and C19 : 0 iso (6.78 %). The peptidoglycan type was A3α l-Lys-Gly2-3–l-Ser-Gly. Based on cellular morphology and biochemical criteria, the new isolate was assigned to the genus Staphylococcus, although it did not correspond to any recognized species. The G+C content of the DNA was 36.6 mol%. Phylogenetic analysis based on 16S rRNA gene sequence comparisons showed that the new isolate was most closely related to Staphylococcus piscifermentans, Staphylococcus condimenti, Staphylococcus carnosus subsp. carnosus, S. carnosus subsp. utilis and Staphylococcus simulans (97.7 %, 97.6 %, 97.6 %, 97.6 % and 96.5 % sequence similarity, respectively). Comparison of tuf, hsp60, rpoB, dnaJ and sodA gene sequences was also performed. In phylogenetic analysis inferred from tuf, dnaJ and rpoB gene sequence comparisons, strain 5402776T clustered with Staphylococcus pettenkoferi (93.7 %, 82.5 % and 89 % sequence similarity, respectively) and on phylogenetic analysis inferred from sodA gene sequence comparisons, it clustered with Staphylococcus chromogenes (82.8 %). On the basis of phenotypic and genotypic data, this isolate represents a novel species for which the name Staphylococcus massiliensis sp. nov. is proposed (type strain 5402776T=CCUG 55927T=CSUR P23T).

Cortinarius parkeri, a new species from the Pacific Northwest of North America

Botany ◽  
2012 ◽  
Vol 90 (4) ◽  
pp. 327-335 ◽  
Author(s):  
Joseph F. Ammirati ◽  
Tess E. Barlow ◽  
Michelle T. Seidl ◽  
Oldriska Ceska ◽  
Mary Berbee ◽  
...  
Keyword(s):  
North America ◽  
Pacific Northwest ◽  
Internal Transcribed Spacer ◽  
Nuclear Ribosomal Dna ◽  
Internal Transcribed Spacer Region ◽  
The Pacific ◽  
Base Sequences ◽  
Interspecific Genetic Distance ◽  
Pileus Surface ◽  
A New Species

Cortinarius parkeri , a new vernal species in subgenus Cortinarius , section Veneti , is described from the Pacific Northwest of North America. Within its subgenus, C. parkeri is unique in that its membranous universal veil is attached to the pileus edge of young mushrooms and extends as a covering over the pileus surface. At maturity, the universal veil forms a sheathing membranous volva-like structure that flares out above the stipe base. Sequences of the nuclear ribosomal DNA internal transcribed spacer region (ITS1-5.8s-ITS2) determined for 13 collections of C. parkeri were all identical, except for a polymorphic two base pair indel. In a phylogeny including other related species from North America and Europe, C. parkeri is monophyletic. In contrast to intraspecific distances, the interspecific genetic distance between C. parkeri and other Veneti species sequences was large. Being dikaryotic, mushrooms of C. parkeri contain genomes from two parents. As expected in a dikaryon in an interbreeding population, the polymorphic indel was homozygous in some collections but heterozygous in three collections, with conflicting sequences resulting from mixed parental types. Taken together, morphological and molecular results strongly support C. parkeri as a new and distinctive species.

Zygosaccharomyces sapae sp. nov., isolated from Italian traditional balsamic vinegar

2013 ◽  
Vol 63 (Pt_1) ◽  
pp. 364-371 ◽  
Author(s):  
Lisa Solieri ◽  
Tikam Chand Dakal ◽  
Paolo Giudici
Keyword(s):  
Phylogenetic Analysis ◽  
Novel Species ◽  
Sequence Similarity ◽  
Distinct Species ◽  
Internal Transcribed Spacers ◽  
Rrna Gene ◽  
The Novel ◽  
Balsamic Vinegar ◽  
A Chain ◽  
26S Rrna

Fourteen yeast isolates were recovered from two traditional balsamic vinegar (TBV) samples collected in the provinces of Modena and Reggio Emilia, Italy. Microsatellite-primed-PCR (MSP-PCR) was used to de-replicate the isolate collection into two representative strains, ABT301T and ABT601. Phylogenetic analysis based on the D1/D2 domains of the 26S rRNA gene indicated that these strains represented a distinct species of the genus Zygosaccharomyces, closely related to Zygosaccharomyces rouxii and Zygosaccharomyces mellis. Physiological and morphological tests supported the recognition of a novel taxon of halotolerant, osmotolerant, non-psychrotolerant and maltose-fermentation-negative yeasts showing a chain or star-shaped pattern of budding cells, which remained attached to each other. Morphological observations offered evidence of ascospore formation. A novel species, Zygosaccharomyces sapae sp. nov., is proposed to accommodate these strains, with strain ABT301T ( = CBS 12607T = MUCL 54092T) as the type strain. Based on D1/D2 domain phylogenetic analysis, the novel strains shared the highest sequence similarity (100 %) with Zygosaccharomyces sp. strain NCYC 3042, previously isolated from sugar [James, S. A., Bond, C. J., Stratford, M. & Roberts, I. N. (2005). FEMS Yeast Res 5, 747–755]. However, based on phylogenetic (internal transcribed spacers, ITS), PCR fingerprinting and physiological analyses, marked differences were observed between the novel species and strain NCYC 3042, and these results are discussed in more detail.

scholarly journals Genome-based classification of three novel actinobacteria from the Karakum Desert: Jiangella asiatica sp. nov., Jiangella aurantiaca sp. nov. and Jiangella ureilytica sp. nov

2020 ◽  
Vol 70 (3) ◽  
pp. 1993-2002 ◽  
Author(s):  
Hayrettin Saygin ◽  
Hilal Ay ◽  
Kiymet Guven ◽  
Nevzat Sahin
Keyword(s):  
Type Species ◽  
Novel Species ◽  
Morphological Characteristics ◽  
Distinct Species ◽  
Diaminopimelic Acid ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Sequence Comparisons ◽  
Content Type ◽  
Link Type

Three isolates, 5K138T, 8K307T and KC603T, with typical morphological characteristics of members of the genus Jiangella were obtained during a study searching for novel actinobacteria with biosynthetic potential from the Karakum Desert. A polyphasic approach was adopted to determine taxonomic affiliations of the strains. The strains showed chemotaxonomic properties consistent with their classification as representing members of the genus Jiangella such as ll-diaminopimelic acid in the cell wall peptidoglycan, diphosphatidylglycerol, phosphatidylglycerol and phosphatidylinositol as major polar lipids as well as MK-9(H4) as a major menaquinone. Pairwise sequence comparisons of the 16S rRNA genes showed that the strains were closely related to Jiangella alba DSM 45237T, Jiangella rhizosphaerae NEAU-YY265T and Jiangella mangrovi 3SM4-07T with higher than 99 % sequence identities. However, a combination of phenotypic and phylogenetic approaches as well as genome-based comparative analyses confirmed the taxonomic positions of these strains as representing distinct species within the genus Jiangella . Therefore, strains 5K138T, 8K307T and KC603T should each be classified as representing a novel species within the genus Jiangella , for which the names Jiangella asiatica sp. nov., Jiangella aurantiaca sp. nov. and Jiangella ureilytica sp. nov. are proposed, respectively. The type strains of the proposed novel species are as follows: Jiangella asiatica 5K138T (=JCM 33518T=CGMCC 4.7672T), Jiangella aurantiaca 8K307T (=JCM 33519T=CGMCC 4.7621T) and Jiangella ureilytica KC603T (=JCM 33520T=CGMCC 4.7618T).

scholarly journals Rhodanobacter aciditrophus sp. nov., an acidophilic bacterium isolated from mine wastewater

2015 ◽  
Vol 65 (Pt_12) ◽  
pp. 4574-4579 ◽  
Author(s):  
Hyeon-Woo Koh ◽  
Heeji Hong ◽  
Ui-Gi Min ◽  
Myung-Suk Kang ◽  
Song-Gun Kim ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Distinct Species ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Mine Wastewater ◽  
Acidophilic Bacterium

A novel strain (designated sjH1T), characterized as aerobic, Gram-stain-negative, oxidase-positive, catalase-negative, motile and rod-shaped, was isolated from mine wastewater. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain sjH1T belonged to the genus Rhodanobacter. Strain sjH1T was closely related to Rhodanobacter thiooxydans LCS2T (98.0% 16S rRNA gene sequence similarity), Rhodanobacter denitrificans 2APBS1T (97.7%), Rhodanobacter soli DCY45T (97.2%) and Rhodanobacter caeni MJ01T (97.0%). The DNA G+C content of strain sjH1T was 69.2 mol%. DNA–DNA relatedness ( < 60%) indicated that strain sjH1T represents a distinct species that is separate from R. thiooxydans, R. denitrificans, R. soli and R. caeni. The major ubiquinone was Q-8, and major fatty acids were summed feature 9 (iso–C17 : 1ω9c and/or C16 : 0 10-methyl), iso-C15 : 0, iso-C17 : 0, iso-C16 : 0 and anteiso-C15 : 0. Based on data from this polyphasic study, it is proposed that sjH1T ( = KCTC 42660T = JCM 30774T) is the type strain of a novel species, Rhodanobacter aciditrophus sp. nov.

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