COI

COI
  • 文章类型: Journal Article
    属于Corbicula属的淡水clam的广泛全球分布是由多个雌雄同体谱系驱动的。这些血统,具有共同的形态特征和表型可塑性,对形态学鉴定提出了挑战。遗传标记,比如线粒体COI基因,在划定这些谱系及其范围中起着至关重要的作用。形态型代表观察到的表型变异,而谱系是根据遗传标记定义的。这里,我们全面回顾了Corbicula在阿根廷的分布,根据形态和遗传(COI)数据区分现有谱系,并使用15个阿根廷人口描述内部和外部形态的变化。遗传分析确定了两种线粒体谱系:AR形态型(FW5单倍型)和CS形态型(FW17单倍型)。引人注目的是,尽管有相似的向量,起源,和侵入性阶段,Corbicula谱系几乎表现出隔离的分布。然而,线粒体单倍型主要在阿根廷东北部发现,那里存在中间形态型个体,表明由于母体基因组保留而存在杂种。这些发现有助于澄清阿根廷Corbicula谱系的身份和分布,该属在那里已经发现了半个多世纪。在其他领域需要进行类似的研究,以更好地了解这个成功和适应性强的群体的入侵模式。
    The broad global distribution of freshwater clams belonging to the genus Corbicula is driven by multiple hermaphroditic lineages. These lineages, characterized by shared morphological traits and phenotypic plasticity, pose challenges to morphological identification. Genetic markers, such as the mitochondrial COI gene, play a crucial role in delineating these lineages and their ranges. Morphotypes represent observed phenotypic variations, while lineages are defined based on genetic markers. Here, we comprehensively review Corbicula\'s distribution in Argentina, discriminate extant lineages based on both morphological and genetic (COI) data, and describe variations in internal and external morphologies using 15 Argentine populations. Genetic analyses identified two mitochondrial lineages: the AR morphotype (FW5 haplotype) and CS morphotype (FW17 haplotype). Strikingly, despite having similar vectors, origins, and invasive stages, Corbicula lineages exhibit virtually segregated distributions. However, mitochondrial haplotypes are found in sympatry mainly in northeastern Argentina where individuals with intermediate morphotypes exist, suggesting the presence of hybrids due to maternal genome retention. These findings contribute to the clarification of the identity and distribution of Corbicula lineages in Argentina, where the genus has been found for over half a century. Similar studies are needed in other areas to better understand the invasion patterns of this successful and adaptable group.
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  • 文章类型: Journal Article
    背景:白纹伊蚊因其传播病毒性疾病的能力而受到医学关注,如登革热和基孔肯雅热。白纹伊蚊起源于亚洲,现在遍布各大洲,除了南极洲。在莫桑比克,Ae.白纹病于2015年在首都马普托首次报道,到2019年,它已在周边地区建立。怀疑蚊子种群起源于马达加斯加或西印度洋(IWIO)的岛屿。这项研究的目的是确定其起源。鉴于杀虫剂抗药性传播的风险,我们还检测了电压敏感性钠通道(VSSC)的相关突变.
    方法:Ae的鸡蛋。白纹伊蚊在马托拉-里约收集,马普托附近的一个自治市,并在实验室饲养成人。分析了细胞色素C氧化酶亚基I(COI)序列和微卫星基因座以估计起源。使用Sanger测序检查VSSC的结构域II和III内的敲低抗性(kdr)突变的存在。
    结果:COI网络分析否定了Ae的假设。白纹伊蚊种群起源于马达加斯加或IWIO;相反,COI网络和微卫星分析表明,该种群在遗传上与东南亚大陆和杭州相似,中国。Sanger测序确定了F1534C敲低突变的存在,在亚洲人群中广泛分布,具有高等位基因频率(46%)。
    结论:这些结果不支持莫桑比克Ae的假设。白纹伊蚊种群起源于马达加斯加或IWIO。相反,他们认为原产地是东南亚大陆或中国的沿海城镇。
    BACKGROUND: The Aedes albopictus mosquito is of medical concern due to its ability to transmit viral diseases, such as dengue and chikungunya. Aedes albopictus originated in Asia and is now present on all continents, with the exception of Antarctica. In Mozambique, Ae. albopictus was first reported in 2015 within the capital city of Maputo, and by 2019, it had become established in the surrounding area. It was suspected that the mosquito population originated in Madagascar or islands of the Western Indian Ocean (IWIO). The aim of this study was to determine its origin. Given the risk of spreading insecticide resistance, we also examined relevant mutations in the voltage-sensitive sodium channel (VSSC).
    METHODS: Eggs of Ae. albopictus were collected in Matola-Rio, a municipality adjacent to Maputo, and reared to adults in the laboratory. Cytochrome c oxidase subunit I (COI) sequences and microsatellite loci were analyzed to estimate origins. The presence of knockdown resistance (kdr) mutations within domain II and III of the VSSC were examined using Sanger sequencing.
    RESULTS: The COI network analysis denied the hypothesis that the Ae. albopictus population originated in Madagascar or IWIO; rather both the COI network and microsatellites analyses showed that the population was genetically similar to those in continental Southeast Asia and Hangzhou, China. Sanger sequencing determined the presence of the F1534C knockdown mutation, which is widely distributed among Asian populations, with a high allele frequency (46%).
    CONCLUSIONS: These results do not support the hypothesis that the Mozambique Ae. albopictus population originated in Madagascar or IWIO. Instead, they suggest that the origin is continental Southeast Asia or a coastal town in China.
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  • 文章类型: Journal Article
    种内遗传变异对于评估生物体对不断变化的环境和人为压力的抵抗力很重要。水生DNA元编码为生物多样性研究提供了一种非侵入性方法,包括物种内的调查。通过对日本海彼得大湾的eDNA样本进行分析,在这项研究中,我们旨在评估Zosterasp.丰富物种中海洋eDNA中扩增子序列变体(ASV)的鉴定。社区:Hexagrammosoctogrammus,Pholidapusdybowskii(Teleostei:Perciformes),和Pandaluslatirostris(节肢动物:Decapoda)。这些物种是从两个遥远的地方收集的,以产生模拟群落,并在群落和个体水平上收集水生eDNA。我们的方法突出了eDNA元编码在捕获单倍型多样性方面的功效,以及这种方法准确跟踪遗传多样性的潜力,为保护工作和生态系统管理做出贡献。此外,我们的结果阐明了核线粒体DNA片段(NUMTs)对代谢编码数据可靠性的影响,表明在生态研究中对此类数据进行谨慎解释的必要性。此外,我们分析了来自多细胞生物常见群体的83个公开可用的COI序列数据集(Mollusca,棘皮病,甲壳动物,Polychaeta,和Actinopterygii)。结果反映了与COI条形码相比,使用元条形码引起的种群多样性减少。
    Intraspecific genetic variation is important for the assessment of organisms\' resistance to changing environments and anthropogenic pressures. Aquatic DNA metabarcoding provides a non-invasive method in biodiversity research, including investigations at the within-species level. Through the analysis of eDNA samples collected from the Peter the Great Gulf of the Japan Sea, in this study, we aimed to evaluate the identification of Amplicon Sequence Variants (ASVs) in marine eDNA among abundant species of the Zostera sp. community: Hexagrammos octogrammus, Pholidapus dybowskii (Teleostei: Perciformes), and Pandalus latirostris (Arthropoda: Decapoda). These species were collected from two distant locations to produce mock communities and gather aquatic eDNA both on the community and individual level. Our approach highlights the efficacy of eDNA metabarcoding in capturing haplotypic diversity and the potential for this methodology to track genetic diversity accurately, contributing to conservation efforts and ecosystem management. Additionally, our results elucidate the impact of nuclear mitochondrial DNA segments (NUMTs) on the reliability of metabarcoding data, indicating the necessity for cautious interpretation of such data in ecological studies. Moreover, we analyzed 83 publicly available COI sequence datasets from common groups of multicellular organisms (Mollusca, Echinodermata, Crustacea, Polychaeta, and Actinopterygii). The results reflect the decrease in population diversity that arises from using the metabarcode compared to the COI barcode.
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  • 文章类型: Journal Article
    Chayote(Sechiumedule)是墨西哥具有重要经济和药学意义的作物。Chayote受辣椒疫霉的影响,导致植物枯萎和水果腐烂。三种分离株(A1-C,A2-H,和A3-O)是从韦拉克鲁斯的三个产区获得的,墨西哥。描述了孢子囊的形态特征和在三种不同培养基上的菌落模式。通过扩增内部转录间隔区(ITS)和细胞色素c氧化酶亚基1(COI)的部分序列进行分子鉴定,经过系统发育分析的序列。交配类型,沙丘果实的致病性,并测定了对甲霜灵的敏感性。分离物A1-C表现为最大的孢子囊;所有孢子囊均呈乳头状,具有不同的形态和花梗长度。所有分离株显示不同的菌落模式:菊花(A1-C),星状(A2-H),和花瓣状(A3-O)。ITS区域和COI基因的系统发育树拓扑结构相似,三个分离株的序列与分类为2b组的疫霉属的序列成簇,证实了他们作为P.capsici的身份.分离株A1-C和A3-O的交配类型为A2,分离株A2-H的交配类型为A1。致病性试验表明,分离株A1-C的毒力最强,对甲霜灵具有中等敏感性。这项工作表明,来自墨西哥各个生产区的辣椒分离株可能表现出形态和毒力变异性。
    Chayote (Sechium edule) is a crop of great economic and pharmaceutical importance in Mexico. Chayote is affected by Phytophthora capsici, which causes plant wilt and fruit rot. Three isolates of P. capsici (A1-C, A2-H, and A3-O) were obtained from three producing areas in Veracruz, Mexico. Morphometric characteristics of sporangia and the colony pattern on three different media were described. They were molecularly identified by amplification of the internal transcribed spacer region (ITS) and the partial sequence of cytochrome c oxidase subunit 1 (COI), sequences that were phylogenetically analyzed. The mating type, pathogenicity in S. edule fruits, and sensitivity to metalaxyl were determined. Isolate A1-C presented the largest sporangium; all sporangia were papillated, with different morphologies and pedicel lengths. All isolates showed different colony patterns: chrysanthemum (A1-C), stellate (A2-H), and petaloid (A3-O). The topology of the phylogenetic tree was similar for the ITS region and COI gene, the sequences of the three isolates clustered with sequences of the genus Phytophthora classified in group 2b, corroborating their identity as P. capsici. The mating type of isolates A1-C and A3-O was A2 and of isolate A2-H was A1. The pathogenicity test indicated that isolate A1-C was the most virulent and with intermediate sensitivity to metalaxyl. This work suggests that P. capsici isolates from various production areas in Mexico may exhibit morphological and virulence variability.
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  • 文章类型: Journal Article
    宇航员海是南大洋中进入最少的地区之一,我们对该地区鱼类生物多样性的了解很少。在这项研究中,我们通过分析在第37和38次中国国家南极研究考察队(CHINARE)航行中通过拖网捕捞的98个鱼类样品的细胞色素氧化酶I(COI)条形码,提供了对宇航员海底栖鱼类多样性的描述。代表19属和11科的24种,即,甲科,Bathydraconidae,鱼科,甲虫科,Liparidae,巨尿科,Muraenolepidae,Myctophidae,Nototheniidae,副翅目和动物园科,被歧视和识别,与南极高陆架地区的当地鱼类发生记录和底栖鱼类群落的一般模式基本相同。由于两种潜在隐蔽物种的指示性信号,未能在所有物种中检测到和确认条形码间隙的有效性。然而,DNA条形码仍然被证明是区分和分类南极鱼类的一种非常有效和合理的方法。在未来,鼓励涵盖宇航员海所有地理部分和深度地层的各种采样策略,以增强我们对当地鱼类群落的了解,在其中,DNA条形码可以在分子分类学或建立用于eDNA元条形码分析的专用本地参考数据库中发挥重要作用。
    The Cosmonaut Sea is one of the least accessed regions in the Southern Ocean, and our knowledge about the fish biodiversity in the region is sparse. In this study, we provided a description of demersal fish diversity in the Cosmonaut Sea by analysing cytochrome oxidase I (COI) barcodes of 98 fish samples that were hauled by trawling during the 37th and 38th Chinese National Antarctic Research Expedition (CHINARE) cruises. Twenty-four species representing 19 genera and 11 families, namely, Artedidraconidae, Bathydraconidae, Bathylagidae, Channichthyidae, Liparidae, Macrouridae, Muraenolepididae, Myctophidae, Nototheniidae, Paralepididae and Zoarcidae, were discriminated and identified, which were largely identical to local fish occurrence records and the general pattern of demersal fish communities at high Antarctic shelf areas. The validity of a barcoding gap failed to be detected and confirmed across all species due to the indicative signals of two potential cryptic species. Nevertheless, DNA barcoding still demonstrated to be a very efficient and sound method for the discrimination and classification of Antarctic fishes. In the future, various sampling strategies that cover all geographic sections and depth strata of the Cosmonaut Sea are encouraged to enhance our understanding of local fish communities, within which DNA barcoding can play an important role in either molecular taxonomy or the establishment of a dedicated local reference database for eDNA metabarcoding analyses.
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  • 文章类型: Journal Article
    锁按蚊(Meigen,1804)(双翅目,Culicidae)在西部古北地区很普遍,但它是第一次在卡累利阿(俄罗斯)录制。该记录是古北地区和俄罗斯的最北端记录之一,更新了安的北部边界。克拉维格范围。从2023年7月至9月,在卡累利阿南部(Gomselga村,Kondopoga区,和Petrozavodsk)使用Krishtal陷阱(来自人类)和MosquitoMagnet®陷阱(先锋设计,辛烯醇作为引诱剂)。An的七个女人。claviger在Gomselga收集;从Petrozavodsk城市公园采样了一个样本。通过COI和ITS2序列验证了八只雌性的形态鉴定。ITS2和COI序列的系统发育分析证实了收集的标本为An。clavigers.s.,在这两种情况下,在强烈支持的进化枝中的聚类明显不同于密切相关的物种An。petragnani.An的高度多样性。卡累利阿的claviger单倍型与其他地理区域的数据一致,表明该物种在Gomselga和Petrozavodsk的记录并非偶然。
    Anopheles claviger (Meigen, 1804) (Diptera, Culicidae) is widespread in the western Palaearctic Region, but it was recorded in Karelia (Russia) for the first time. This record is one of the northernmost ones in the Palaearctic Region and Russia, updates the northern border of the An. claviger range. Mosquitoes were collected from July to September 2023 in the southern Karelia (the village of Gomselga, Kondopoga District, and Petrozavodsk) using Krishtal trap (from human) and Mosquito Magnet® trap (Pioneer design, Octenol as attractant). Seven females of An. claviger were collected in Gomselga; one specimen was sampled from Petrozavodsk City parks. Morphological identification of eight females was verified by COI and ITS2 sequences. Phylogenetic analysis of ITS2 and COI sequences confirmed the collected specimens to An. claviger s. s., clustering in both cases in a strongly supported clade clearly differentiated from the closely related species An. petragnani. The high diversity of An. claviger haplotypes from Karelia is in agreement with data from other geographical regions and shows that the records of this species in Gomselga and Petrozavodsk are not accidental.
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  • 文章类型: Journal Article
    传统上,海洋骨料提取的环境影响评估是根据大型底栖动物的形态特征进行的,这很耗时,劳动密集型,需要特定的分类学专业知识。建议将大容量DNA元转录编码作为一种有前途的替代方法。这项研究比较了传统的形态学和散装DNA元编码方法,以评估沙子提取活动对比利时北海三个沙洲的影响。在方法之间观察到检测到的物种的实质性差异:两种方法都检测到丰富和/或大型底栖动物物种,而小物种或具有外骨骼的物种通常只能通过形态学方法检测到。可以通过形态学在更高的分类学水平上鉴定出的标本来解释通过大量DNA代谢编码唯一检测到的分类群,或者读数很低的标本,可能代表形态分类过程中遗漏的物种,PCR扩增效率过程中标本上的DNA痕迹或假阳性。尽管检测到的物种不同,两种方法都观察到了可比的α和β多样性模式,这表明大量的DNA元编码可以有效地检测与沙子提取相关的整体生态变化。我们进一步证明,与基于形态学的鉴定相比,批量DNA元编码减少了样品处理的时间(快44%)和成本(便宜26%)。然而,生物质定量仍然是具有挑战性的散装DNA元碳编码,因为十个最丰富的属,只有两个属(Echinocardium和Ophelia)在生物量和阅读数之间显示出显着的正相关。此外,大量的DNA元编码不能提供有关已识别标本的生命阶段或大小的信息。因此,我们的结果支持了两种方法的互补性,其中基于DNA的分析允许快速检测群落变化(因为观察到α和β多样性和生物指数的相似模式),而基于形态学的分析提供了关于例如次级生产(生物质)和尺寸组成的额外信息。我们展示了如何结合两种方法的优势来评估砂提取的影响。
    Environmental impact assessments of marine aggregate extraction are traditionally conducted based on morphological characteristics of macrobenthos, which is time-consuming, labour-intensive and requires specific taxonomic expert knowledge. Bulk DNA metabarcoding is suggested as a promising alternative. This study compares the traditional morphological and the bulk DNA metabarcoding method to assess the impact of sand extraction activities on three sandbanks in the Belgian North Sea. Substantial differences in the detected species were observed between methods: Abundant and/or large macrobenthos species were detected by both methods, while small species or species with an exoskeleton were usually only detected by the morphological method. Taxa uniquely detected by bulk DNA metabarcoding could be explained by specimens identified at a higher taxonomic level by morphology, or by specimens with very low read numbers, probably representing species missed in the morphological sorting process, DNA traces on the specimens or false positives during PCR amplification efficiency. Despite the difference in detected species, comparable alpha and beta diversity patterns were observed by both methods, indicating that bulk DNA metabarcoding can effectively detect the overall ecological changes associated with sand extraction. We further demonstrate that bulk DNA metabarcoding reduces sample processing both in time (44 % faster) and cost (26 % cheaper) compared to the morphology-based identification. However, biomass quantification remains challenging for bulk DNA metabarcoding since of the ten most abundant genera, only two genera (Echinocardium and Ophelia) showed a significant positive correlation between biomass and read numbers. Additionally, bulk DNA metabarcoding does not provide information on life stages or size of the identified specimens. As such, our results underpin the complementary nature of both methods, wherein DNA-based analyses allow for rapid detection of community changes (as similar patterns in alpha and beta diversity and biotic index were observed), while morphology-based analyses provide additional information on e.g. secondary production (biomass) and size composition. We show how the strengths of both methods can be combined to assess the impact of sand extraction.
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  • 文章类型: Journal Article
    Thelaziacallipaeda(线虫:Spiruriida:Thelaziidae)寄生在狗的眼睛上,猫,人类,和各种野生哺乳动物,并通过果蝇传播。在日本,T.callipaeda被认为是一种新兴的寄生虫,已将其流行区域向北扩展。然而,在家畜和人类以外的哺乳动物中检测到这种病毒的报道很少。本研究报告了在日本红狐狸(Vulpesvulpesjaponicus)中检测到的T.callipaeda,蒙面棕榈果子猫(Pagumalarvata),日本badge(Melesanakuma),日本黑熊(Ursusthibetanusjaponicus),浣熊(Procyonlotor),日本浣熊狗(Nyctereutesviverrinus),家犬(犬),家猫(Felissilvestriscatus),和人类。其中,日本红狐狸,蒙面棕榈果子鱼,日本badge,和日本黑熊被报道为新颖的宿主记录。对T.callipaeda的细胞色素c氧化酶亚基I基因的序列分析揭示了日本特有的两个独特谱系,没有区域或寄主物种差异。这些结果表明T.callipaeda的宿主范围很广,强调野生动物作为日本这种寄生虫的水库的重要作用。
    Thelazia callipaeda (Nematoda: Spirurida: Thelaziidae) parasitizes the eyes of dogs, cats, humans, and various wild mammals, and is transmitted by drosophilid flies. In Japan, T. callipaeda is considered an emerging parasite that has expanded its endemic region northward. However, reports of its detection in mammals other than domestic animals and humans are scarce. This study reports the detection of T. callipaeda in Japanese red fox (Vulpes vulpes japonica), masked palm civet (Paguma larvata), Japanese badger (Meles anakuma), Japanese black bear (Ursus thibetanus japonicus), raccoon (Procyon lotor), Japanese raccoon dog (Nyctereutes viverrinus), domestic dog (Canis lupus familiaris), domestic cat (Felis silvestris catus), and human. Of these, the Japanese red fox, masked palm civet, Japanese badger, and Japanese black bear have been reported as novel host records. Sequence analysis of the cytochrome c oxidase subunit I gene of T. callipaeda revealed two unique lineages specific to Japan, with no regional or host species differences. These results suggest a wide host range for T. callipaeda, highlighting the significant role of wildlife as a reservoir for this parasite in Japan.
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  • 文章类型: Journal Article
    ThianiaC.L.Koch属的三个新种,1846年和YaginumaellaPrószyñski,1979年被描述并命名为T.bamiansp。11月。T.flacatasp.11月。()和Y.curvatasp。11月。来自湖南省,中国。详细说明,躯体特征和交配器官的照片,以及分布图。条形码基因的核苷酸数据,T.bamiansp的细胞色素c氧化酶亚基I(COI)。11月。(‰‰)和Y.curvatasp.11月。(等)提供。
    Three new species of the genera Thiania C. L. Koch, 1846 and Yaginumaella Prószyński, 1979 are described and named as T.bamian sp. nov. (♂♀), T.flacata sp. nov. (♀) and Y.curvata sp. nov. (♂♀), from Hunan Province, China. Detailed descriptions, photos of somatic features and copulatory organs, as well as a distribution map are provided. Nucleotide data for the barcoding gene, cytochrome c oxidase subunit I (COI) of T.bamian sp. nov. (♂♀) and Y.curvata sp. nov. (♀) are provided.
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  • 文章类型: Journal Article
    KarschiaWalter属的物种,1889年,从西藏收集,中国,被审查了。利用形态学和分子数据共识别出6个物种,卡尔希亚(Karschia)西藏赫斯特,1907年是根据新收集的雄性和雌性重新描述的,和五个新物种,Karschia(Karschia)dingyesp.11月。,卡尔希亚(卡尔希亚)拉萨普。11月。,Karschia(Karschia)zhuisp.11月。,卡尔希亚(Karschia)shigatsesp。11月。,和Karschia(Karschia)namlingsp。11月。,被描述。
    The species of the genus Karschia Walter, 1889, collected from Xizang, China, were reviewed. A total of six species were recognized using morphological and molecular data, Karschia (Karschia) tibetana Hirst, 1907 is redescribed based on newly collected males and females, and five new species, Karschia (Karschia) dingyesp. nov., Karschia (Karschia) lhasasp. nov., Karschia (Karschia) zhuisp. nov., Karschia (Karschia) shigatsesp. nov., and Karschia (Karschia) namlingsp. nov., are described.
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