scholarly journals Morphology, ontogenetic features and SSU rRNA gene-based phylogeny of a soil ciliate, Bistichella cystiformans spec. nov. (Protista, Ciliophora, Stichotrichia)

2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 4049-4060 ◽  
Author(s):  
Yangbo Fan ◽  
Xiaozhong Hu ◽  
Feng Gao ◽  
Saleh A. Al-Farraj ◽  
Khaled A. S. Al-Rasheid
Keyword(s):  
Novel Species ◽  
Southern China ◽  
Phylogenetic Analyses ◽  
Final Conclusion ◽  
Rrna Gene ◽  
Ssu Rrna ◽  
The Novel ◽  
Ssu Rrna Gene ◽  
To Come ◽  
Mode 3

The morphology, ontogeny and SSU rRNA gene-based phylogeny of Bistichella cystiformans spec. nov., isolated from the slightly saline soil of a mangrove wetland in Zhanjiang, southern China, were investigated. The novel species was characterized by having five to eight buccal cirri arranged in a row, three to five transverse cirri, four macronuclear nodules aligned, and 17–32 and 20–34 cirri in frontoventral rows V and VI, respectively, both extending to the transverse cirri. The main ontogenetic features of the novel species were as follows: (1) the parental adoral zone of the membranelles is completely inherited by the proter; (2) the frontoventral and transverse cirri are formed in a six-anlagen mode; (3) basically, the frontal-ventral-transverse cirral anlagen II–V generate one transverse cirrus each at their posterior ends, while anlage VI provides no transverse cirrus; (4) both marginal rows and dorsal kineties develop intrakinetally, no dorsal kinety fragment is formed; and (5) the macronuclear nodules fuse into a single mass at the middle stage. Phylogenetic analyses based on the SSU rRNA gene showed that the novel species groups with the clade containing Bistichella variabilis, Parabistichella variabilis, Uroleptoides magnigranulosus and two species of the genus Orthoamphisiella. Given present knowledge, it was considered to be still too early to come to a final conclusion regarding the familial classification of the genus Bistichella; further investigations of key taxa with additional molecular markers are required.

scholarly journals Morphology, morphogenesis and molecular phylogeny of a novel soil ciliate, Pseudouroleptus plestiensis n. sp. (Ciliophora, Oxytrichidae), from the uplands of Colfiorito, Italy

2014 ◽  
Vol 64 (Pt_8) ◽  
pp. 2625-2635 ◽  
Author(s):  
Daizy Bharti ◽  
Santosh Kumar ◽  
Antonietta La Terza
Keyword(s):  
Molecular Phylogeny ◽  
Novel Species ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Ssu Rrna ◽  
The Novel ◽  
Gene Sequences ◽  
Ssu Rrna Gene ◽  
Umbria Region ◽  
The Right

The terrestrial oxytrichid ciliate Pseudouroleptus plestiensis n. sp., isolated from soil samples collected from the uplands of Colfiorito (Umbria region, Italy), was investigated using live observation and protargol impregnation. The morphology, morphogenesis and molecular phylogeny inferred from small-subunit (SSU) rRNA gene sequences were studied. The novel species is mainly characterized by the following: a cell size of about 145×35 µm in vivo; two ellipsoidal macronuclear nodules and two to four micronuclei; adoral zone about 26 % of body length with a mean of 30 membranelles; about 40 cirri in the right marginal row and 38 in the left marginal row; left fronto-ventral row consisting of about 27–40 cirri, right fronto-ventral row of about three to seven cirri forming a short row to the right of the rear portion of the left fronto-ventral row; one parabuccal cirrus ( = III/2), one buccal and one post-peristomial cirrus; and four dorsal kineties with caudal cirri at the end of kineties 1 and 2. The morphogenesis of the novel species is similar to that of Pseudouroleptus caudatus. Phylogenetic analyses based on SSU rRNA gene sequences consistently placed the novel species within the family Oxytrichidae Ehrenberg, 1838, clustering with P. caudatus and the genus Strongylidium. The results from the present study contribute to the expanding knowledge of the diversity of ciliates in Italian soil.

Taxonomy, morphology and molecular systematics of three oligotrich ciliates, including a description of Apostrombidium parakielum spec. nov. (Ciliophora, Oligotrichia)

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 1179-1191 ◽  
Author(s):  
Wen Song ◽  
Jiamei Li ◽  
Weiwei Liu ◽  
Jiamei Jiang ◽  
Khaled A. S. Al- Rasheid ◽  
...  
Keyword(s):  
Sequence Data ◽  
Novel Species ◽  
Small Subunit ◽  
Rrna Gene ◽  
Ssu Rrna ◽  
The Novel ◽  
Small Subunit Rrna ◽  
Ssu Rrna Gene ◽  
Single Clade ◽  
Ssu Rrna Gene Sequence

Three oligotrich ciliates, Apostrombidium parakielum spec. nov., Novistrombidium apsheronicum (Alekperov & Asadullayeva, 1997) Agatha, 2003 and Novistrombidium testaceum (Anigstein, 1914) Song & Bradbury, 1998 were collected from the coastal waters of China and their morphology and small-subunit rRNA (SSU rRNA) gene sequences were studied. The novel species can be recognized by the combination of its obconical body shape, 14–16 anterior and 6–8 ventral membranelles, somatic kinety in three parts and conspicuously long dorsal cilia. Based on the data obtained for this novel species, an improved diagnosis of the genus Apostrombidium is supplied. Descriptions of the population of N. apsheronicum and N. testaceum collected in this study are also provided and compared with the existing descriptions. In addition, the phylogenetic positions of these three species are inferred from their SSU rRNA gene sequence data. The results indicate that the genus Apostrombidium, the systematics of which has not previously been discussed using molecular information, clusters with Varistrombidium kielum and Omegastrombidium elegans, whereas N. testaceum and N. apsheronicum form a single clade.

Redescription and SSU rRNA gene-based phylogeny of an anaerobic ciliate, Plagiopyla ovata Kahl, 1931 (Ciliophora, Plagiopylea)

2021 ◽  
Vol 71 (8) ◽  
Author(s):  
Ran Li ◽  
Wenbao Zhuang ◽  
Congcong Wang ◽  
Hamed El-Serehy ◽  
Saleh A. Al-Farraj ◽  
...  
Keyword(s):  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Small Subunit ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Ssu Rrna ◽  
Gene Trees ◽  
Ssu Rrna Gene ◽  
Anaerobic Ciliate ◽  
Pr China

The morphology and molecular phylogeny of Plagiopyla ovata Kahl, 1931, a poorly known anaerobic ciliate, were investigated based on a population isolated from sand samples collected from the Yellow Sea coast at Qingdao, PR China. Details of the oral ciliature are documented for the first time to our knowledge and an improved species diagnosis is given. The small subunit ribosomal RNA (SSU rRNA) gene was newly sequenced and phylogenetic analyses revealed that P. ovata clusters within the monophyletic family Plagiopylidae. However, evolutionary relationships within both the family Plagiopylidae and the genus Plagiopyla remain obscure owing to undersampling, the lack of sequence data from known species and low nodal support or unstable topologies in gene trees. A key to the identification of the species of the genus Plagiopyla with validly published names is also supplied.

scholarly journals New Intranuclear Symbiotic Bacteria from Macronucleus of Paramecium putrinum—“Candidatus Gortzia Yakutica”

Diversity ◽  
2020 ◽  
Vol 12 (5) ◽  
pp. 198 ◽  
Author(s):  
Alexandra Y. Beliavskaia ◽  
Alexander V. Predeus ◽  
Sofya K. Garushyants ◽  
Maria D. Logacheva ◽  
Jun Gong ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Life Cycle ◽  
Host Species ◽  
Novel Species ◽  
Symbiotic Bacteria ◽  
Rrna Gene ◽  
Ssu Rrna ◽  
Ssu Rrna Gene ◽  
Obligate Intracellular

Holospora-like bacteria (HLB) are obligate intracellular Alphaproteobacteria, inhabiting nuclei of Paramecium and other ciliates such as “Candidatus Hafkinia” is in Frontonia. The HLB clade is comprised of four genera, Holospora, Preeria, “Candidatus Gortzia”, and “Candidatus Hafkinia”. These bacteria have a peculiar life cycle with two morphological forms and some degree of specificity to the host species and the type of nucleus they inhabit. Here we describe a novel species of HLB—“Candidatus Gortzia yakutica” sp. nov.—a symbiont from the macronucleus of Paramecium putrinum, the first described HLB for this Paramecium species. The new endosymbiont shows morphological similarities with other HLB. The phylogenetic analysis of the SSU rRNA gene places it into the “Candidatus Gortzia” clade.

The morphology and phylogeny of two euplotid ciliates, Diophrys blakeneyensis spec. nov. and Diophrys oligothrix Borror, 1965 (Protozoa, Ciliophora, Euplotida)

2012 ◽  
Vol 62 (Pt_11) ◽  
pp. 2757-2773 ◽  
Author(s):  
Xiaozhong Hu ◽  
Jie Huang ◽  
Alan Warren
Keyword(s):  
Salt Marshes ◽  
Gene Sequence ◽  
Phylogenetic Analyses ◽  
Cladistic Analysis ◽  
Bootstrap Support ◽  
Rrna Gene ◽  
Ssu Rrna ◽  
Rrna Gene Sequence ◽  
Ssu Rrna Gene ◽  
Ssu Rrna Gene Sequence

The morphology, infraciliature and molecular phylogeny of two marine ciliated protozoans, Diophrys blakeneyensis spec. nov. and Diophrys oligothrix Borror, 1965, isolated from British salt marshes, were investigated using microscopic observations of live and protargol-impregnated specimens, and by small subunit (SSU) rRNA gene sequence analysis. Diophrys blakeneyensis spec. nov. is characterized as follows: cell oval to rectangular in outline; size variable, approximately 60–180 × 30–80 µm in vivo; adoral zone comprising about 45 membranelles; usually five frontal, two ventral, five transverse, two left marginal and three caudal cirri; five dorsal kineties with more than 10 dikinetids each; 7–23 spherical to ellipsoid macronuclear nodules in a ring-like pattern; marine biotope. The population of Diophrys oligothrix described here corresponds well with previous populations in terms of its general morphology and ciliary pattern, in particular the continuous ciliary rows on the dorsal side with loosely arranged cilia. The main differences between the present and previously reported populations are the broader buccal field and greater number of dorsal kineties in the present population, both of which are regarded as population-dependent features. Phylogenetic analyses based on SSU rRNA gene sequence data demonstrate that Diophrys blakeneyensis is most closely related to Diophrys oligothrix, and both organisms cluster with two congeners with high bootstrap support within a larger group that contain the core species of the Diophrys-complex. Cladistic analysis based on morphological and morphogenetic data broadly agree with the SSU rRNA gene sequence phylogeny. Both analyses suggest that the genus Diophrys may be polyphyletic.

Amycolatopsis helveola sp. nov. and Amycolatopsis pigmentata sp. nov., isolated from soil

2010 ◽  
Vol 60 (11) ◽  
pp. 2629-2633 ◽  
Author(s):  
Tomohiko Tamura ◽  
Yuumi Ishida ◽  
Misa Otoguro ◽  
Ken-ichiro Suzuki
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
Monophyletic Cluster ◽  
The 16S Rrna Gene ◽  
Taxonomical Study

Three short spore chain-forming actinomycete strains were isolated from soil samples collected from subtropical islands in Japan. The cell-wall peptidoglycan of these strains contained meso-diaminopimelic acid (meso-A2pm), glutamic acid and alanine. The major isoprenoid quinone was MK-9(H4), iso-C16 : 0 and 2-OH iso-C16 : 0 were the major cellular fatty acids and phosphatidylethanolamine was a component of the polar lipids. The G+C content of the genomic DNA was 67–69 mol%. Phylogenetic analyses based on the 16S rRNA gene sequences showed that the novel strains consistently formed a monophyletic cluster with Amycolatopsis taiwanensis. On the basis this polyphasic taxonomical study, it is proposed that the two new isolates represent two novel species: Amycolatopsis helveola (type strain TT00-43T=NBRC 103394T=KCTC 19329T) and Amycolatopsis pigmentata (type strain TT99-32T=NBRC 103392T=KCTC 19330T).

scholarly journals Pelagicoccus croceus sp. nov., a novel marine member of the family Puniceicoccaceae within the phylum ‘Verrucomicrobia’ isolated from seagrass

2007 ◽  
Vol 57 (12) ◽  
pp. 2874-2880 ◽  
Author(s):  
Jaewoo Yoon ◽  
Naoya Oku ◽  
Satoru Matsuda ◽  
Hiroaki Kasai ◽  
Akira Yokota
Keyword(s):  
Cell Wall ◽  
Novel Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
The Novel ◽  
Antibiotic Susceptibility Test ◽  
The Family ◽  
Lactam Antibiotic

An obligately aerobic, spherical, non-motile, pale-yellow pigmented bacterium was isolated from a piece of leaf of seagrass, Enhalus acoroides (L.f.) Royle, grown in Okinawa, Japan and was subjected to a polyphasic taxonomic study. Phylogenetic analyses based on 16S rRNA gene sequences revealed that the novel isolate N5FB36-5T shared approximately 96–98 % sequence similarity with the species of the genus Pelagicoccus of the family Puniceicoccaceae within the phylum ‘Verrucomicrobia’. The DNA–DNA relatedness values of strain N5FB36-5T with Pelagicoccus mobilis 02PA-Ca-133T and Pelagicoccus albus YM14-201T were below 70 %, which is accepted as the phylogenetic definition of a novel species. β-Lactam antibiotic susceptibility test and amino acid analysis of the cell wall hydrolysates indicated the absence of muramic acid and diaminopimelic acid in the cell walls, which suggested that this strain lacks an ordinary Gram-negative type of peptidoglycan in the cell wall. The DNA G+C content of strain N5FB36-5T was 51.6 mol%; MK-7 was the major menaquinone; and the presence of C16 : 0, C16 : 1 ω7c and anteiso-C15 : 0 as the major cellular fatty acids supported the identification of the novel isolate as a member of the genus Pelagicoccus. On the basis of polyphasic taxonomic data, it was concluded that this strain should be classified as a novel species of the genus Pelagicoccus, for which the name Pelagicoccus croceus sp. nov. is proposed. The type strain is N5FB36-5T (=MBIC08282T=KCTC 12903T).

scholarly journals Morphology and phylogeny of three karyorelictean ciliates (Protista, Ciliophora), including two novel species, Trachelocerca chinensis sp. n. and Tracheloraphis dragescoi sp. n.

2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 4084-4097 ◽  
Author(s):  
Yuan Xu ◽  
Ying Yan ◽  
Lifang Li ◽  
Khaled A. S. Al-Rasheid ◽  
Saleh A. Al-Farraj ◽  
...  
Keyword(s):  
Intertidal Zone ◽  
Novel Species ◽  
Phylogenetic Analyses ◽  
Small Subunit ◽  
Sandy Beaches ◽  
Rrna Gene ◽  
Ssu Rrna ◽  
Gene Sequences ◽  
Approximately Unbiased ◽  
Nuclear Group

This paper investigates the morphology and infraciliature of three karyorelictean ciliates, Trachelocerca chinensis sp. n., Tracheloraphis dragescoi sp. n. and a rarely known form, Geleia acuta (Dragesco, 1960) Foissner, 1998, which were isolated from the intertidal zone of sandy beaches at Zhanjiang and Qingdao, China. Trachelocerca chinensis sp. n. is distinguished from related forms by having 26–30 somatic kineties, a narrow glabrous stripe and a single nuclear group composed of approximately four to six macronuclei and two micronuclei. Tracheloraphis dragescoi sp. n. can be recognized through its 14–22 somatic kineties, wide glabrous stripe and a single nuclear group composed of about four macronuclei. Phylogenetic analyses based on small-subunit (SSU) rRNA gene sequences indicated that the genera Trachelocerca and Tracheloraphis are closely related but that neither of them appears to be a clearly monophyletic group. Nonetheless, the monophyly of Trachelocerca is not rejected by the approximately unbiased (AU) test (P = 0.143, >0.05), although that of Tracheloraphis is rejected (P = 0.011, <0.05). Geleia acuta, meanwhile, branched with Geleia fossata and falls in the Geleia clade.

Starmerella neotropicalis f. a., sp. nov., a yeast species found in bees and pollen

2013 ◽  
Vol 63 (Pt_10) ◽  
pp. 3896-3903 ◽  
Author(s):  
Heide-Marie Daniel ◽  
Carlos A. Rosa ◽  
Paula S. São Thiago-Calaça ◽  
Yasmine Antonini ◽  
Esther M. A. F. Bastos ◽  
...  
Keyword(s):  
Yeast Species ◽  
Novel Species ◽  
Phylogenetic Analyses ◽  
Large Subunit ◽  
Nitrogen Sources ◽  
Rrna Gene ◽  
The Novel ◽  
Additional Strain ◽  
Candida Apicola ◽  
Cell Densities

A novel yeast species was found repeatedly and in high cell densities in underground-nesting stingless bees of the species Melipona quinquefasciata and their provisions in northern Minas Gerais (Brazil). One additional strain was isolated from bee-collected pollen in Cuba. Phylogenetic analyses based on rRNA gene sequences (D1/D2 large subunit gene and internal transcribed spacer) indicated that the novel species belongs to the Starmerella clade and is most closely related to Candida (iter. nom. Starmerella) apicola. Growth reactions on carbon and nitrogen sources were typical of those observed in related species of the Starmerella clade. PCR-fingerprinting with mini- and microsatellite specific primers allowed the distinction of the novel species from Candida apicola, Candida bombi and a yet undescribed species represented by strain CBS 4353. On the basis of phylogenetic relationships, the novel species is assigned to the genus Starmerella despite the failure to observe sexual reproduction after extensive mating tests. We propose the name Starmerella neotropicalis f. a., sp. nov. (Mycobank MB 804285) and designate UFMG PST 09T ( = MUCL 53320T = CBS 12811T) as the type strain.

scholarly journals Deinococcus aerolatus sp. nov. and Deinococcus aerophilus sp. nov., isolated from air samples

2010 ◽  
Vol 60 (5) ◽  
pp. 1191-1195 ◽  
Author(s):  
Seung-Hee Yoo ◽  
Hang-Yeon Weon ◽  
Soo-Jin Kim ◽  
Yi-Seul Kim ◽  
Byung-Yong Kim ◽  
...  
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Taxonomic Status ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
Air Samples ◽  
Air Sample

Two strains of pink-coloured bacteria, 5516T-9T and 5516T-11T, were isolated from an air sample collected in Korea. The taxonomic status of these novel strains was investigated by means of a polyphasic approach. The novel strains were Gram-positive, aerobic, non-spore-forming and coccus-shaped bacteria. The DNA G+C contents of strains 5516T-9T and 5516T-11T were 61.0 and 59.3 mol%, respectively. The major isoprenoid quinone for both strains was MK-8. Strain 5516T-9T contained summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1 ω7c), C16 : 0 and iso-C17 : 1 ω9c, and strain 5516T-11T contained summed feature 3, iso-C17 : 1 ω9c, C17 : 1 ω8c and C15 : 1 ω6c as the major fatty acids (>10 %). The polar lipid patterns of both strains were similar, comprising one phospholipid and one aminophospholipid as the major components. Phylogenetic analyses using 16S rRNA gene sequences showed that both novel strains were affiliated to the genus Deinococcus. Strain 5516T-9T exhibited the highest sequence similarity with Deinococcus marmoris DSM 12784T (96.8 %) and strain 5516T-11T showed the highest sequence similarity with Deinococcus saxicola DSM 15974T (94.5 %). The sequence similarity between strains 5516T-9T and 5516T-11T was 94.7 %. On the basis of the data presented, it is evident that both strains represent separate novel species of the genus Deinococcus for which the names Deinococcus aerolatus sp. nov. (type strain 5516T-9T=KACC 12745T=JCM 15442T) and Deinococcus aerophilus sp. nov. (type strain 5516T-11T=KACC 12746T=JCM 15443T) are proposed.

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