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1.
    
Barbus xanthos, a new species, is described from the Eşen, Dalaman, Tersakan and Büyük Menderes rivers in south-western Anatolia. It differs from other Barbus species in the adjacent basins by having 53–60 lateral line scales, a weakly ossified last unbranched dorsal-fin ray (about 33–50%), numerous small irregular-shaped black or dark-brown spots smaller than scales, often forming large, black or dark-brown blotches on back and flank in juveniles and adults, and a straight or slightly convex posterior dorsal-fin margin. B. xanthos differs from its most closely related congener, B. pergamonensis, by nine nucleotide substitution sites in the mitochondrial DNA cytochrome oxidase I barcode region.  相似文献   

2.
    
Two specimens of Micromyzon akamai, an eyeless and miniaturized species previously known only from the deep channels of the eastern Amazon basin in Brazil, are reported from the Curaray River, a tributary of the Napo River in Ecuador. The new specimens are the first records of Micromyzon in the headwaters of the Amazon River and the first records of M. akamai outside Brazil. External morphological characters and a phylogenetic analysis of cytochrome c oxidase I (coI) gene support the identification of the new specimens as M. akamai. Nevertheless, the new specimens also indicate that some features previously hypothesized to be apomorphic for M. akamai are intraspecifically variable.  相似文献   

3.
Oxynoemacheilus cemali sp. nov. is described from the Çoruh River drainage in the eastern Black Sea basin. One molecular marker (coI), 25 morphometric and four meristic characters were analysed. Oxynoemacheilus cemali is distinguished from O. kosswigi, O. banarescui, O. samanticus and O. angorae in the Black Sea basin by having a suborbital groove in males, an axillary lobe at the pelvic-fin base, no dorsal adipose crest on the caudal peduncle, a slightly-forked caudal fin and 7–15 dark grey dorsal saddles. Morever, Oxynoemacheilus cemali is distinguished by commonly having 9–15 irregularly-shaped dark-grey bars on the flank posterior to the dorsal-fin origin or, rarely having a mottled pattern or 4–6 irregularly shaped dark-grey bars on the flank posterior to the dorsal-fin origin. Oxynoemacheilus cemali is also distinguished from the closely related species O. araxensis and O. cyri, distributed outside the Black Sea basin, by having 15 and 31 diagnostic nucleotide substitutions in the coI barcode region, respectively.  相似文献   

4.
This study represents the first molecular survey of the ichthyofauna of Taal Lake and the first DNA barcoding attempt in Philippine fishes. Taal Lake, the third largest lake in the Philippines, is considered a very important fisheries resource and is home to the world's only freshwater sardine, Sardinella tawilis. However, overexploitation and introduction of exotic fishes have caused a massive decline in the diversity of native species as well as in overall productivity of the lake. In this study, 118 individuals of 23 native, endemic and introduced fishes of Taal Lake were barcoded using the partial DNA sequence of the mitochondrial cytochrome c oxidase subunit I (COI) gene. These species belong to 21 genera, 17 families and 9 orders. Divergence of sequences within and between species was determined using Kimura 2-parameter (K2P) distance model, and a neighbour-joining tree was generated with 1000 bootstrap replications using the K2P model. All COI sequences for each of the 23 species were clearly discriminated among genera. The average within species, within genus, within family and within order percent genetic divergence was 0.60%, 11.07%, 17.67% and 24.08%, respectively. Our results provide evidence that COI DNA barcodes are effective for the rapid and accurate identification of fishes and for identifying certain species that need further taxonomic investigation.  相似文献   

5.
    
A new locality is reported for the Iranian subterranean fishes Garra typhlops and Garra lorestanensis (and probably Eidinemacheilus smithi), near the village Tuveh in the Dez River drainage. The site is 31 km straight‐line distance away from the only other known locality where these species have been observed previously. The finding suggests the presence of a sizeable subterranean aquifer system in the Tigris drainage extending for between 31 and 162 km.  相似文献   

6.
    
Two regions of mtDNA, cytochrome b and cytochrome c oxidase subunit 1, were sequenced in nine species of Bathyraja from the Southern Ocean and New Zealand. Based on sequence divergence, the species that has been referred to as Bathyraja eatonii from the Antarctic continental shelf and slope is a species distinct from B. eatonii from the Kerguelen Plateau (the type locality) and is a new and undescribed species Bathyraja sp. (cf. eatonii). There was no sequence divergence among samples of Bathyraja sp. (dwarf) from the Ross Sea and the South Atlantic. However, for both Bathyraja sp. (cf. eatonii) and Bathyraja maccaini in the Ross Sea and the South Atlantic Ocean, the DNA sequence divergences indicate differentiation among ocean basins and within Bathyraja sp. (cf. eatonii) divergences are similar to those among recognized species of Bathyraja in the North Pacific Ocean.  相似文献   

7.
    
Salmo fahrettini, a new species, is distributed in the northern tributaries of the Euphrates River. It differs from other Salmo species in adjacent waters by a combination of the following characters: a greyish body; one black spot behind the eye and on the cheek; three to six black spots on the opercle; numerous black spots on the back (missing on the predorsal area), flank and middle part of body, surrounded by a roundish white ring; red spots in the median part of the body, surrounded by a roundish white ring; short and narrow maxilla; increase in the number of black and red spots with an increase in size; adipose fin medium size, no or rarely one red spot at its posterior edge; 109–116 lateral line scales; 27–30 scale rows between dorsal-fin origin and lateral line; 20–23 scale rows between the lateral line and anal-fin origin; maxilla length 8.8–10.0% standard length in males, 8.8–9.6 in females.  相似文献   

8.
The gene encoding cytochrome c-553 from Desulfovibrio vulgaris (Miyazaki F) was cloned using a synthetic oligodeoxyribonucleotide probe. The nucleotide sequence indicated that cytochrome c-553 was synthesized as a precursor protein with an NH2-terminal signal sequence of 23 residues. In the cloned DNA fragment, there are three other open reading frames whose products have 191, 157, 541 amino acid residues, respectively. The putative ORF-4 product is highly homologous with the cytochrome c oxidase subunit I from various organisms.  相似文献   

9.
    
Fully oxidized cytochrome c oxidase (CcO) under enzymatic turnover is capable of pumping protons, while fully oxidized CcO as isolated is not able to do so upon one‐electron reduction. The functional difference is expected to be a consequence of structural differences: [Fe3+–OH−] under enzymatic turnover versus [Fe3+–O22−–Cu2+] for the as‐isolated CcO. However, the electron density for O22− is equally assignable to Cl−. An anomalous dispersion analysis was performed in order to conclusively demonstrate the absence of Cl− between the Fe3+ and Cu2+. Thus, the peroxide moiety receives electron equivalents from cytochrome c without affecting the oxidation states of the metal sites. The metal‐site reduction is coupled to the proton pump.  相似文献   

10.
环境DNA (eDNA)是指生物有机体在环境中(例如土壤、沉积物或水体)遗留下的DNA片段。eDNA技术是指从环境中提取DNA片段进行测序以及数据分析来反映环境中的物种或群落信息。与传统方法相比, eDNA技术具有高灵敏度、省时省力、无损伤等优点。目前, eDNA技术已成为一种新的水生生物监测方法, 主要应用于水生生物的多样性研究、濒危和稀有动物的物种状态及外来入侵动物扩散动态的监测等。本文从eDNA技术在水生生物多样性监测应用领域的发展历程、eDNA技术的操作流程以及其在监测淡水底栖大型无脊椎动物方面的应用进展、技术优势和局限性五个方面进行了综述。最后, 本文对eDNA技术在淡水底栖大型无脊椎动物多样性监测应用的发展趋势和前景作出展望。  相似文献   

11.
    
Annelid polychaetes have been seldom the focus of dedicated DNA barcoding studies, despite their ecological relevance and often dominance, particularly in soft‐bottom estuarine and coastal marine ecosystems. Here, we report the first assessment of the performance of DNA barcodes in the discrimination of shallow water polychaete species from the southern European Atlantic coast, focusing on specimens collected in estuaries and coastal ecosystems of Portugal. We analysed cytochrome oxidase I DNA barcodes (COI‐5P) from 164 specimens, which were assigned to 51 morphospecies. To our data set from Portugal, we added available published sequences selected from the same species, genus or family, to inspect for taxonomic congruence among studies and collection location. The final data set comprised 290 specimens and 79 morphospecies, which generated 99 Barcode Index Numbers (BINs) within Barcode of Life Data Systems (BOLD). Among these, 22 BINs were singletons, 47 other BINs were concordant, confirming the initial identification based on morphological characters, and 30 were discordant, most of which consisted on multiple BINs found for the same morphospecies. Some of the most prominent cases in the latter category include Hediste diversicolor (O.F. Müller, 1776) (7), Eulalia viridis (Linnaeus, 1767) (2) and Owenia fusiformis (delle Chiaje, 1844) (5), all of them reported from Portugal and frequently used in ecological studies as environmental quality indicators. Our results for these species showed discordance between molecular lineages and morphospecies, or added additional relatively divergent lineages. The potential inaccuracies in environmental assessments, where underpinning polychaete species diversity is poorly resolved or clarified, demand additional and extensive investigation of the DNA barcode diversity in this group, in parallel with alpha taxonomy efforts.  相似文献   

12.
    
With 76 currently valid species, the bushynose catfish genus Ancistrus is the fourth most species-rich catfish genus, yet Ancistrus diversity remains underestimated, with many species still undescribed. This is especially true of the Peruvian Andean headwaters of the Amazon, which are rich in unnamed Ancistrus species but have received little recent taxonomic attention. We describe a distinctively striped new Ancistrus species from tributaries of the Palcazú River, in the Pachitea-Ucayali-Amazonas drainage basin. The new species differs from all congeners by having black, vermiculated lines covering the head and two to four distinct black, parallel, lateral body stripes from head to caudal fin (vs. body uniformly colored or with dark or light spots or blotches over head and body, or black vermiculate lines on flanks). The new species is the fifth valid species of Ancistrus described from the rich Ucayali River ichthyofauna. It has previously been recognized in the aquarium fish trade as L267.  相似文献   

13.
    
Identification of fish larvae based on morphology is typically limited to higher taxonomic ranks (e.g., family or order), as larvae possess few morphological diagnostic characters for precise discrimination to species. When many samples are presented at any one time, the use of morphology to identify such specimens can be laborious and time-consuming. Using a reverse workflow for specimen sorting and identification leveraging high-throughput DNA sequencing, thousands of fish larvae can be DNA barcoded and sorted into molecular operational taxonomic units (mOTUs) in a single sequencing run with the nanopore sequencing technology (e.g., MinION). This process reduces the time and financial costs of morphology-based sorting and instead deploys experienced taxonomists for species taxonomic work where they are needed most. In this study, a total of 3022 fish larval specimens from plankton tows across four sites in Singapore were collected and sorted based on this workflow. Eye tissue from individual samples was used for DNA extraction and sequencing of cytochrome c oxidase subunit I. We generated a total of 2746 barcodes after quality filtering (90.9% barcoding success), identified 2067 DNA barcodes (75.3% identification success), and delimited 256 mOTUs (146 genera, 52 families). Our analyses identified specific challenges to species assignment, such as the potential misidentification of publicly available sequences used as reference barcodes. We highlighted how the conservative application and comparison of a local sequence database can help resolve identification conflicts. Overall, this proposed approach enables and expedites taxonomic identification of fish larvae, contributing to the enhancement of reference barcode databases and potentially better understanding of fish connectivity.  相似文献   

14.
    
The crystal structure of bovine heart cytochrome c oxidase has been determined at 2.8 Å resolution by the multiple isomorphous replacement (MIR) method with three heavy-atom derivatives. An asymmetric unit of the crystal has a molecular weight of 422 kDa. Eight heavy atoms as main sites of a CH3HgCl derivative were clearly located by solving the difference Patterson function. The electron density obtained by the MIR method was refined by density modification, consisting of solvent flattening, histogram matching and non-crystallographic symmetry averaging. The enzyme exhibits a dimeric structure in the crystal. Out of 3606 amino-acid residues in 26 subunits in the dimer, 3560 residues were located in the electron-density map. The structure was refined by X-PLOR. The final R factor and the free R factor were 0.199 and 0.252 at 2.8 Å resolution, respectively. One monomer in the dimeric structure with a stronger packing interaction has a lower averaged temperature factor than the other, by 16 Å2. The region 12 Å from the centre of the transmembrane part is almost 100% -helix, despite the glycine residue content being as high as 7.1% in the transmembrane region. The residues around haem a of animals have evolved away from those of bacteria in contrast with the residues of the haem a3. The hierarchy of the structural organization of the enzyme complex has been proposed on the basis of intersubunit interactions.  相似文献   

15.
    
The Ili River Valley, located in the northwest of China, serves as a vital repository for fish genetic resources. Its extensive water network and diverse climate have given rise to a unique fish composition and endemic species. In this study, we collected the cytochrome c oxidase subunit I (COI) sequences from 660 fish specimens in the Ili River Valley. The effectiveness of DNA barcoding in identifying fish species in the area was assessed by examining genetic distances, constructing phylogenetic trees, and performing ABGD (Automatic Barcode Gap Discovery) analyses, among other methods. In total, 20 species were identified, including one unidentified species (Silurus sp.). Except for Silurus asotus and Hypophthalmichthys molitrix (only one sample), the maximum intraspecific genetic distance among the remaining species was smaller than the minimum interspecific distance, which proves that the species exhibit obvious barcode gaps. In the Neighbor-Joining trees, 20 species formed separate monophyletic branches. According to ABGD analysis, 660 sequences were categorized into 19 Operational Taxonomic Units, with Silurus sp. and S. asotus grouped into a single OTU. The Silurus in this study exhibits shared haplotypes and significant genetic divergence, suggesting the potential presence of cryptic species. Furthermore, the nucleotide diversity across all species fell below the threshold level, indicating that the local fish population is gradually declining. In conclusion, this study has demonstrated the effectiveness of DNA barcoding in identifying fish species in the Ili River Valley, providing valuable data to support the conservation of local fish resources.  相似文献   

16.
    
Recently, the number of collection records of Pemphigus galls from Populus nigra has been increasing in Japan. To identify the galls on P. nigra, mitochondrial COI sequences were analyzed from galling aphid samples collected on P. nigra in Tokyo and Hokkaido. From the BLAST search and neighbor‐joining (NJ) analysis, the aphid samples were identified as Pemphigus bursarius, which has not been recorded from Japan. Two samples from Tokyo and Hokkaido showed a genetic difference of 0.30%. This result suggests that different strains of P. bursarius might have been introduced into the Japanese islands at least twice.  相似文献   

17.
    
A new species of camaenid land snail, Vulnus wallacei Páll-Gergely, Otani & Hosoda n. sp. is described from Nusa Penida and Lombok Islands, Indonesia. The new species is putatively classified into the genus Vulnus, which is only known so far from the Northern Maluku Islands. The genital anatomy, especially the presence of a well-developed penial sheath in V. wallacei, suggests a close relationship with Australian camaenids. However, the molecular phylogeny based on partial cytochrome c oxidase I, and 16S and 28S ribosomal RNA genes shows that the new species falls outside the cluster of all Australian Camaenidae.

http://www.zoobank.org/urn:lsid:zoobank.org:pub:D28554D0-3578-4E95-8849-09EAFB7D30F7  相似文献   


18.
DNA barcoding provides an efficient method for species-level identifications. In this study, we have amplified partial sequences of mitochondrial cytochrome c oxidase I (COI) gene from 110 specimens of 45 species of Caenogastropoda collected from the coast along China to evaluate whether DNA barcodes can distinguish these species accurately. The average Kimura 2-parameter (K2P) distances within species, genera and families were 0.44%, 13.96% and 22.27%, respectively. Both the neighbour-joining tree and the Bayesian tree showed a clear discrimination of all the species in our study with highly supported clades. These results proved that the species of Caenogastropoda can be efficiently and accurately identified by DNA barcoding based on the COI gene.  相似文献   

19.
对21种帘蛤科贝类线粒体细胞色素c氧化酶亚基Ⅰ(cytochrome c oxidase subunit I,COI)基因核苷酸序列进行了分析,以探讨这一序列在种质鉴定、分子系统发生研究中的应用价值。测序结果表明,所有物种扩增片段长度均为707 bp(含引物),序列A+T含量(62.4%—67.8%)明显高于G+C含量。物种间共有变异位点379个,其中简约信息位点334个;此区段共编码235个氨基酸,种间共有氨基酸变异位点100个。以COI基因片段序列为标记,用中国蛤蜊(Mactra chinensis)作外群,构建了35种帘蛤科贝类(其中14种贝类COI序列从GenBank下载)的系统发生树,结合拓扑结构分析和序列比对分析,结果表明:支持将短文蛤(Meretrix petechinalis)和丽文蛤(M.lusoria)订为文蛤(M.meretrix)的同物异名的观点,建议将丽文蛤和短文蛤订为文蛤的地理亚种;支持将薄片镜蛤(Dosinia corrugata)和D.angulosa订为2个独立种的观点;认为将波纹巴非蛤(Paphia undulata)和织锦巴非蛤(P.textile)订为2个独立种是合适的。COI基因序列含有丰富的遗传信息,适合作为帘蛤科贝类种群遗传结构和系统发生研究的分子标记。  相似文献   

20.
    
ABSTRACT

The conoidean family Drilliidae Olsson, 1964 is a species-rich lineage of marine gastropods, showing a high degree of diversification in comparison to other families of Conoidea. Despite intensive molecular phylogenetic studies during the last decade that have led to notable rearrangements of conoidean systematics, the genus- and species-level taxonomy of Drilliidae has not thus far been affected and remains entirely based on shell features. In the current study we revisit species delimitation in a morphological cluster of species from the Indo-Pacific referred to as the Clavus canalicularis complex, using an integrative taxonomy approach. The species in the complex possess robust thick-walled shells typically over 15?mm in height with sculpture of prominent rounded nodules located at the whorl’s shoulder, sometimes sharp and squamiform, or producing long spines. We find that in addition to five known species, the complex comprises four new species. These are described as Clavus brianmayi n. sp. (New Caledonia), Clavus davidgilmouri n. sp. (the Philippines), Clavus andreolbrichi n. sp. (Vanuatu and New Ireland) and Clavus kirkhammetti n. sp. (Madagascar). Clavus exasperatus (Reeve, 1843), which was previously considered widely distributed in Indo-Pacific, is shown to be confined to the western Indian Ocean.  相似文献   

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