scholarly journals A new western Atlantic snapping shrimp of the Alpheus macrocheles group (Caridea, Alpheidae) revealed by morphological, molecular and color data

Author(s):  
Guidomar O. Soledade ◽  
Mariana Terossi ◽  
Justin A. Scioli ◽  
Fernando Luis Mantelatto ◽  
Alexandre O. Almeida

Alpheus macrocheles (Hailstone, 1835), a species originally described from the northeastern Atlantic, has been reported from Brazil based on material from the north and northeast coasts and Espírito Santo. However, a thorough morphological comparison between Brazilian material reported as A. macrocheles and eastern Atlantic material of A. macrocheles revealed consistent differences, suggesting that the Brazilian specimens belong to an undescribed species. Alpheus ramosportoae sp. nov. is therefore now described based on material from Amapá to Pernambuco, Brazil. Morphological differences between the new species and A. macrocheles s. str. were supported by the clear divergence of 16S rRNA gene sequences (18% of genetic distance), separating the species in two distinct clades. Differences in the color pattern also were observed and illustrated.

2012 ◽  
Vol 62 (Pt_8) ◽  
pp. 1784-1789 ◽  
Author(s):  
Sanghwa Park ◽  
Susumu Yoshizawa ◽  
Kentaro Inomata ◽  
Kazuhiro Kogure ◽  
Akira Yokota

Two coccoid, non-motile bacteria were isolated from seawater in the north-western Pacific Ocean near Japan. The two strains, designated S1-36T and S1-72T, were Gram-negative, obligately aerobic, heterotrophic and catalase-negative. They were able to reduce nitrate to nitrogen. Both strains required NaCl for growth, with optimum growth in 2 % NaCl, and grew at 15–30 °C, with optimum growth at 20–25 °C. Genomic DNA G+C contents of strains S1-36T and S1-72T were 59.6 and 59.4 mol%, respectively. The predominant isoprenoid quinone was Q-8 and major cellular fatty acids were C16 : 1ω7c, C18 : 1ω7c and C17 : 1ω8c. Analyses of 16S rRNA gene sequences revealed that strains S1-36T and S1-72T were related to each other (96.1 % sequence similarity) and both strains showed 92.3–94.7 % sequence similarity with members of the genus Haliea . On the basis of phenotypic and phylogenetic features, strains S1-36T and S1-72T should be classified as representatives of two novel species in a new genus, Halioglobus gen. nov., within the class Gammaproteobacteria . The names proposed are Halioglobus japonicus sp. nov., the type species of the genus, with S1-36T ( = NBRC 107739T = KCTC 23429T) as type strain, and Halioglobus pacificus sp. nov., with S1-72T ( = NBRC 107742T = KCTC 23430T) as type strain.


2015 ◽  
Vol 23 (2) ◽  
pp. 20-30 ◽  
Author(s):  
Dávid Kováts ◽  
Andrea Harnos

Abstract In this paper, a complex morphological comparison of four Common Nightingale groups (Luscinia megarhynchos) is demonstrated. In total, 121 territorial nightingales were mist-netted and measured individually on four study areas called ‘Bódva’, ‘Felső-Tisza’, ‘Szatmár-Bereg’ and ‘Bátorliget’ in the North-Eastern part of Hungary in 2006–2013. To distinguish groups by morphology, Classification and Regression Trees (CART), Random Forest (RF) and Linear Discriminant Analysis (LDA) methods were used. Comparison of the four studied Common Nightingale groups shows substantial morphological differences in the length of the second, the third and the fourth primaries (P2, P3, P4), in bill length (BL) and bill width (BW), while other characteristics showed greater similarities. Based on the results of all the applied classification methods, birds originated from Szatmár-Bereg were clearly distinguishable from the others. The differences in morphology can be explained by interspecific competition or phenotypic plasticity resulting from the change of ecological, environmental parameters. Our case study highlights the advantageous differences of the classification methods to distinguish groups with similar morphology and to choose important variables for classification. In conclusion, broad application of the classification methods RF and CART is highly recommended in comparative ecological studies.


Paleobiology ◽  
1991 ◽  
Vol 17 (3) ◽  
pp. 281-307 ◽  
Author(s):  
Geerat J. Vermeij

When the Bering Strait between Alaska and Siberia opened about 3.5 Ma during the early Pliocene, cool-temperate and polar marine species were able to move between the North Pacific and Arctic-Atlantic basins. In order to investigate the extent, pattern, and dynamics of this trans-Arctic interchange, I reviewed the Recent and fossil distributions of post-Miocene shell-bearing Mollusca in each of five northern regions: (1) the northeastern Atlantic (Lofoten Islands to the eastern entrance of the English Channel and the northern entrance of the Irish Sea), (2) northwestern Atlantic (southern Labrador to Cape Cod), (3) northeastern Pacific (Bering Strait to Puget Sound), (4) northwestern Pacific (Bering Strait to Hokkaido and the northern Sea of Japan), and (5) Arctic (areas north of the Lofoten Islands, southern Labrador, and Bering Strait).I have identified 295 molluscan species that either took part in the interchange or are descended from taxa that did. Of these, 261 are of Pacific origin, whereas only 34 are of Arctic-Atlantic origin. Various analyses of the pattern of invasion confirm earlier work, indicating that there is a strong bias in favor of species with a Pacific origin.A geographical analysis of invaders implies that, although trans-Arctic interchange contributed to a homogenization of the biotas of the northern oceans, significant barriers to dispersal exist and have existed for trans-Arctic invaders within the Arctic-Atlantic basin. Nevertheless, trans-Arctic invaders in the Atlantic have significantly broader geographical ranges than do taxa with a pre-Pliocene history in the Atlantic.Among the possible explanations for the asymmetry of trans-Arctic invasion, two hypotheses were explicitly tested. The null hypothesis of diversity states that the number of invaders from a biota is proportional to the total number of species in that biota. Estimates of Recent molluscan diversity show that the North Pacific is 1.5 to 2.7 times richer than is the Arctic-Atlantic, depending on how faunistic comparisons are made. This difference in diversity is much smaller than is the asymmetry of trans-Arctic invasion in favor of Pacific species. Rough estimates of regional Pliocene diversity suggest that differences in diversity during the Pliocene were smaller than they are in the Recent fauna. The null hypothesis was therefore rejected.The hypothesis of ecological opportunity states that the number of invaders to a region is proportional to the number of species that became extinct there. The post-Early Pliocene magnitude of extinction was lowest in the North Pacific, intermediate in the northeastern Atlantic, and probably highest in the northwestern Atlantic. The absolute number and faunistic importance of post-Early Pliocene invaders (including trans-Arctic species, as well as taxa previously confined to warm-temperate waters and western Atlantic species that previously occurred only in the eastern Atlantic) was lowest in the North Pacific, intermediate in the northeastern Atlantic, and highest in the northwestern Atlantic. Further support for the hypothesis of ecological opportunity comes from the finding that hard-bottom communities, especially those in the northwestern Atlantic, show a higher representation of molluscan species of Pacific origin, and are likely to have been more affected by climatic events, than were communities on unconsolidated sandy and muddy bottoms. Support for the hypothesis does not rule out other explanations for the observed asymmetry of trans-Arctic invasion.A preliminary study of species-level evolution within lineages of trans-Arctic invaders indicates that anagenesis and cladogenesis have been more frequent among groups with Pacific origins than among those with Atlantic origins, and that the regions within the Arctic-Atlantic basin with the highest absolute number and faunistic representation of invaders (western Atlantic and Arctic) are the regions in which speciation has been least common among the invaders. The asymmetry of invasion is therefore distinct from the asymmetry of species-level evolution of invaders in the various northern marine regions.


Author(s):  
Uedson Pereira Jacobina ◽  
Rodrigo Augusto Torres ◽  
Paulo Roberto Antunes de Mello Affonso ◽  
Ewerton Vieira dos Santos ◽  
Leonardo Luiz Calado ◽  
...  

AbstractThe mojarras (Eucinostomus) are a widespread group of coastal fishes of controversial taxonomy because of similarities in their external morphology. In the present study, we assessed the genetic diversity of species and populations of Eucinostomus using DNA barcodes using a systematic and phylogeographic context. In total, 416 COI sequences of all valid Eucinostomus representatives were analysed based on public databases and collected specimens from the north-eastern coast of Brazil (Western South Atlantic). Several cases of misidentification were detected in the barcode dataset (E. argenteus, E. harengulus, E. gula, E. dowii and E. jonesii) that could account for the taxonomic issues in this genus. In contrast, we identified four molecular operational taxonomic units (MOTUs), with divergence above 2% in the Western Atlantic, that correspond to cryptic forms within E. argenteus, E. harengulus, E. gula and E. melanopterus. These data suggest that Plio-Pleistocene events (rise of the Panama isthmus, Amazonas outflow and sea-level fluctuations) played a major role in the diversification of mojarras. While subtle morphological differences have been used as proxies to discriminate Eucinostomus species, the genetic data proved to be efficient in differentiating them and revealing potentially undescribed taxa. Therefore, we recommend that further taxonomic studies in mojarras should incorporate DNA-based evidence.


Author(s):  
Chandra Risdian ◽  
Wiebke Landwehr ◽  
Manfred Rohde ◽  
Peter Schumann ◽  
Richard L. Hahnke ◽  
...  

AbstractA novel actinobacterium, designated ASO4wetT, was isolated from the unidentified sponge (SO4) in the deep sea collected of the North Atlantic Ocean. Study of 16S rRNA gene sequences indicated that strain ASO4wetT is a member of the genus Streptomyces and showed the closest similarities to Streptomyces karpasiensis K413T (98.87 %), Streptomyces glycovorans YIM M 10366T (98.38 %), and Streptomyces abyssalis YIM M 10400T (97.53 %). Strain ASO4wetT contained MK-9(H8) as the predominant menaquinone and the major fatty acids are iso-C16:0, anteiso-C15:0, and iso-C15:0. Polyphasic taxonomy was carried out between strain ASO4wetT and its phylogenetically closely related Streptomyces strains, which further elucidated their relatedness and revealed that strain ASO4wetT could be distinguished from currently known Streptomyces species. Strain ASO4wetT clearly represents a novel species in genus Streptomyces. We propose the name Streptomyces bathyalis sp. nov., with the type strain ASO4wetT (= DSM 106605T = NCCB 100657T). Analysis of the whole-genome sequence of S. bathyalis revealed that genome size is 7,377,472 bp with 6332 coding sequences.


2011 ◽  
Vol 61 (1) ◽  
pp. 184-189 ◽  
Author(s):  
Manuela Filippini ◽  
Miroslav Svercel ◽  
Endre Laczko ◽  
Andres Kaech ◽  
Urs Ziegler ◽  
...  

A Gram-staining-negative, pink bacterium, designated strain BUZ 2T, was isolated from coastal mud from the North Sea (Fedderwardersiel, Germany). Cells were rod-shaped and able to form multicellular filaments. Growth after 7 days was observed at 10–40 °C, at pH 6–8 and with 0–0.5 % NaCl. The phylogenetic tree based on 16S rRNA gene sequences indicated that strain BUZ 2T is a member of the family Cytophagaceae, its closest neighbours being Rudanella lutea 5715S-11T, Spirosoma linguale LMG 10896T and Spirosoma panaciterrae Gsoil 1519T (87.8, 86.4 and 86.1 % sequence similarity, respectively). The major fatty acids were summed feature 3 (comprising C16 : 1 ω7c and/or iso-C15 : 0 2-OH), C16 : 1 ω5c and iso-C15 : 0. The predominant respiratory quinone was MK-7 and the major polar lipids were phosphatidylethanolamine and several unidentified aminophospholipids. The DNA G+C content was 56.5 mol%. On the basis of this polyphasic study, we propose that strain BUZ 2T represents a novel genus and species, for which the name Fibrella aestuarina gen. nov., sp. nov. is proposed. The type strain of Fibrella aestuarina is BUZ 2T (=DSM 22563T =CCUG 58136T). An emended description of the genus Rudanella is also proposed.


2020 ◽  
Author(s):  
CC Kim ◽  
WJ Kelly ◽  
ML Patchett ◽  
GW Tannock ◽  
Z Jordens ◽  
...  

© 2017 IUMS. A novel anaerobic pectinolytic bacterium (strain 14T) was isolated from human faeces. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain 14T belonged to the family Ruminococcaceae, but was located separately from known clostridial clusters within the taxon. The closest cultured relative of strain 14T was Acetivibrio cellulolyticus (89.7% sequence similarity). Strain 14T shared ~99% sequence similarity with cloned 16S rRNA gene sequences from uncultured bacteria derived from the human gut. Cells were Gram-stain-positive, non-motile cocci approximately 0.6μm in diameter. Strain 14T fermented pectins from citrus peel, apple, and kiwifruit as well as carbohydrates that are constituents of pectins and hemicellulose, such as galacturonic acid, xylose, and arabinose. TEM images of strain 14T, cultured in association with plant tissues, suggested extracellular fibrolytic activity associated with the bacterial cells, forming zones of degradation in the pectin-rich regions of middle lamella. Phylogenetic and phenotypic analysis supported the differentiation of strain 14T as a novel genus in the family Ruminococcaceae. The name Monoglobus pectinilyticus gen. nov., sp. nov. is proposed; the type strain is 14T (JCM 31914T=DSM 104782T).


2005 ◽  
Vol 71 (9) ◽  
pp. 5138-5144 ◽  
Author(s):  
ChoongSoo Yun ◽  
Daiki Amakata ◽  
Yasuhiro Matsuo ◽  
Hideyuki Matsuda ◽  
Makoto Kawamukai

ABSTRACT The betaproteobacterium Mitsuaria chitosanitabida (formerly Matsuebacter chitosanotabidus) 3001 produces a chitosanase (ChoA) that is classified in glycosyl hydrolase family 80. While many chitosanase genes have been isolated from various bacteria to date, they show limited homology to the M. chitosanitabida 3001 chitosanase gene (choA). To investigate the phylogenetic distribution of chitosanases analogous to ChoA in nature, we identified 67 chitosan-degrading strains by screening and investigated their physiological and biological characteristics. We then searched for similarities to ChoA by Western blotting and Southern hybridization and selected 11 strains whose chitosanases showed the most similarity to ChoA. PCR amplification and sequencing of the chitosanase genes from these strains revealed high deduced amino acid sequence similarities to ChoA ranging from 77% to 99%. Analysis of the 16S rRNA gene sequences of the 11 selected strains indicated that they are widely distributed in the β and γ subclasses of Proteobacteria and the Flavobacterium group. These observations suggest that the ChoA-like chitosanases that belong to family 80 occur widely in a broad variety of bacteria.


2021 ◽  
Vol 9 (6) ◽  
pp. 1128
Author(s):  
Kathleen Cusick ◽  
Gabriel Duran

Saxitoxin (STX) is a secondary metabolite and potent neurotoxin produced by several genera of harmful algal bloom (HAB) marine dinoflagellates. The basis for variability in STX production within natural bloom populations is undefined as both toxic and non-toxic strains (of the same species) have been isolated from the same geographic locations. Pyrodinium bahamense is a STX-producing bioluminescent dinoflagellate that blooms along the east coast of Florida as well as the bioluminescent bays in Puerto Rico (PR), though no toxicity reports exist for PR populations. The core genes in the dinoflagellate STX biosynthetic pathway have been identified, and the sxtA4 gene is essential for toxin production. Using sxtA4 as a molecular proxy for the genetic capacity of STX production, we examined sxtA4+ and sxtA4- genotype frequency at the single cell level in P. bahamense populations from different locations in the Indian River Lagoon (IRL), FL, and Mosquito Bay (MB), a bioluminescent bay in PR. Multiplex PCR was performed on individual cells with Pyrodinium-specific primers targeting the 18S rRNA gene and sxtA4. The results reveal that within discrete natural populations of P. bahamense, both sxtA4+ and sxtA4- genotypes occur, and the sxtA4+ genotype dominates. In the IRL, the frequency of the sxtA4+ genotype ranged from ca. 80–100%. In MB, sxtA4+ genotype frequency ranged from ca 40–66%. To assess the extent of sxtA4 variation within individual cells, sxtA4 amplicons from single cells representative of the different sampling sites were cloned and sequenced. Overall, two variants were consistently obtained, one of which is likely a pseudogene based on alignment with cDNA sequences. These are the first data demonstrating the existence of both genotypes in natural P. bahamense sub-populations, as well as sxtA4 presence in P. bahamense from PR. These results provide insights on underlying genetic factors influencing the potential for toxin variability among natural sub-populations of HAB species and highlight the need to study the genetic diversity within HAB sub-populations at a fine level in order to identify the molecular mechanisms driving HAB evolution.


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