KIZ OpenIR研究单元&专题: 生命条形码中心

Description of a new Caliphaea species from Yunnan, China (Odonata: Calopterygidae)

2021-11-11T07:04:59Z

题名: Description of a new Caliphaea species from Yunnan, China (Odonata: Calopterygidae) 作者: Zhang, Hao-Miao; Hamalainen, Matti 摘要: A new calopterygid species Caliphaea hermannkunzi sp. nov. (holotype male China, Yunnan Province, Lufeng County, Chuxiong City, Gaofeng village, 10 June 2019) is described and illustrated for both sexes and compared with its named congeners, from which it differs in the colour pattern of synthorax and the structure of the male anal appendages.

Two new species of Coeliccia Kirby from Yunnan, China (Odonata: Zygoptera: Platycnemididae)

2021-11-11T07:04:58Z

题名: Two new species of Coeliccia Kirby from Yunnan, China (Odonata: Zygoptera: Platycnemididae) 作者: Dow, Rory A.; Zhang, Hao-Miao 摘要: Two new species of Coeliccia Kirby are described from Yunnan, China: Coeliccia tongbiguan sp. nov. and Coeliccia yunnanensis sp. nov. (holotype male for both from Tongbiguan National Nature Reserve, Yingjiang County, Yunnan) Coeliccia tongbiguan is allied to Coeliccia hoanglienensis Do, known only from Vietnam. Coeliccia yunnanensis appears to be closely allied to the Coeliccia hayashii-group, also from Vietnam. The fifteen named species of Coeliccia now known to occur in China are listed, twelve of them occur in Yunnan, the presence of Coeliccia didyma (Selys) in the country is confirmed.

Meta-Transcriptome Profiling of Novel Invasive Pest Spodoptera frugiperda in Yunnan, China

2021-11-11T07:02:40Z

题名: Meta-Transcriptome Profiling of Novel Invasive Pest Spodoptera frugiperda in Yunnan, China 作者: Shi, Junming; Li, Weiwei; Wang, Yunyu; Chen, Quanyan; Deng, Fei

DNA Barcoding Silver Butter Catfish (Schilbe intermedius) Reveals Patterns of Mitochondrial Genetic Diversity Across African River Systems

2021-11-11T07:02:39Z

题名: DNA Barcoding Silver Butter Catfish (Schilbe intermedius) Reveals Patterns of Mitochondrial Genetic Diversity Across African River Systems 作者: Nneji, Lotanna M.; Adeola, Adeniyi C.; Mustapha, Moshood K.; Oladipo, Segun O.; Djagoun, Chabi A. M. S.; Nneji, Ifeanyi C.; Adedeji, Babatunde E.; Olatunde, Omotoso; Ayoola, Adeola O.; Okeyoyin, Agboola O.; Ikhimiukor, Odion O.; Useni, Galadima F.; Iyiola, Oluyinka A.; Faturoti, Emmanuel O.; Matouke, Moise M.; Ndifor, Wanze K.; Wang, Yun-yu; Chen, Jing; Wang, Wen-Zhi; Kachi, Jolly B.; Ugwumba, Obih A.; Ugwumba, Adiaha A. A.; Nwani, Christopher D. 摘要: The silver butter catfish (Schilbe intermedius) is widely distributed across African river systems. To date, information on its mitochondrial genetic diversity, population structure, and historical demography are not well-established. Herein, we combined newly generated mitochondrial cytochrome c oxidase (COI) subunit I gene sequences with previously published COI sequences in the global databases to reconstruct its phylogeography, population genetic structure, and historical demography. Results from the mtDNA phylogeography and species delimitation tests (Cluster algorithm - Species Identifier, Automatic Barcode Gap Discovery and Poison Tree Process model) revealed that S. intermedius comprises at least seven geographically defined matrilines. Although the overall haplotype diversity of S. intermedius was high (h=0.90), results showed that East (Kenya) and West (Nigeria) African populations had low levels of haplotype diversity (h=0.40). In addition, population genetic polymorphism and historical demographics showed that S. intermedius populations in both East and West Africa underwent severe contractions as a result of biogeographic influences. The patterns of genetic diversity and population structure were consistent with adaptive responses to historical biogeographic factors and contemporary environmental variations across African river systems. This is suggestive of the influence of historical biogeographic factors and climatic conditions on population divergence of S. intermedius across African river systems. Given our discovery of previously underappreciated diversity within S. intermedius, we recommend that this species be considered for increased conservation and management.

DNA barcoding and species delimitation of butterflies (Lepidoptera) from Nigeria

2021-11-11T07:02:38Z

题名: DNA barcoding and species delimitation of butterflies (Lepidoptera) from Nigeria 作者: Nneji, Lotanna Micah; Adeola, Adeniyi Charles; Ayoola, Adeola Oluwakemi; Oladipo, Segun Olayinka; Wang, Yun-Yu; Malann, Yoila D.; Anyaele, Okorie; Nneji, Ifeanyi Christopher; Rahman, Md Mizanur; Olory, Caroline Samuel 摘要: Accurate identification of species is a prerequisite for successful biodiversity management and further genetic studies. Species identification techniques often require both morphological diagnostics and molecular tools, such as DNA barcoding, for correct identification. In particular, the use of the subunit I of the mitochondrial cytochrome c oxidase (COI) gene for DNA barcoding has proven useful in species identification for insects. However, to date, no studies have been carried out on the DNA barcoding of Nigerian butterflies. We evaluated the utility of DNA barcoding applied for the first time to 735 butterfly specimens from southern Nigeria. In total, 699 DNA barcodes, resulting in a record of 116 species belonging to 57 genera, were generated. Our study sample comprised 807 DNA barcodes based on sequences generated from our current study and 108 others retrieved from BOLD. Different molecular analyses, including genetic distance-based evaluation (Neighbor-Joining, Maximum Likelihood and Bayesian trees) and species delimitation tests (TaxonDNA, Automated Barcode Gap Discovery, General Mixed Yule-Coalescent, and Bayesian Poisson Tree Processes) were performed to accurately identify and delineate species. The genetic distance-based analyses resulted in 163 well-separated clusters consisting of 147 described and 16 unidentified species. Our findings indicate that about 90.20% of the butterfly species were explicitly discriminated using DNA barcodes. Also, our field collections reported the first country records of ten butterfly species-Acraea serena, Amauris cf. dannfelti, Aterica galena extensa, Axione tjoane rubescens, Charaxes galleyanus, Papilio lormieri lormeri, Pentila alba, Precis actia, Precis tugela, and Tagiades flesus. Further, DNA barcodes revealed a high mitochondrial intraspecific divergence of more than 3% in Bicyclus vulgaris vulgaris and Colotis evagore. Furthermore, our result revealed an overall high haplotype (gene) diversity (0.9764), suggesting that DNA barcoding can provide information at a population level for Nigerian butterflies. The present study confirms the efficiency of DNA barcoding for identifying butterflies from Nigeria. To gain a better understanding of regional variation in DNA barcodes of this biogeographically complex area, future work should expand the DNA barcode reference library to include all butterfly species from Nigeria as well as surrounding countries. Also, further studies, involving relevant genetic and eco-morphological datasets, are required to understand processes governing mitochondrial intraspecific divergences reported in some species complexes.

Testing the Effectiveness of DNA Barcoding for Biodiversity Assessment of Moths from Nigeria

2021-11-11T07:02:37Z

题名: Testing the Effectiveness of DNA Barcoding for Biodiversity Assessment of Moths from Nigeria 作者: Nneji, Lotanna Micah; Adeola, Adeniyi Charles; Wang, Yun-Yu; Ajao, Adeyemi Mufutau; Anyaele, Okorie; Malann, Yoila; Olatunde, Omotoso; Nneji, Ifeanyi Christopher; Ayoola, Adeola Oluwakemi; Rahman, Md Mizanur; Adeniyi, Akinkunle Victor; Okeyoyin, Agboola; Olory, Caroline Samuel 摘要: Comprehensive biodiversity assessment of moths in Nigeria rely greatly on accurate species identification. While most of the Nigerian moths are identified effortlessly using their morphological traits, some taxa are morphologically indistinguishable, which makes it difficult for taxon diagnosis. We investigated the efficiency of the DNA barcode, a fragment of the mitochondrial Cytochrome C oxidase subunit I, as a tool for the identification of Nigerian moths. We barcoded 152 individuals comprising 18 morphospecies collected from one of the remaining and threatened rainforest blocks of Nigeria - the Cross River National Park. Phenetic neighbor-joining tree and phylogenetic Maximum Likelihood approach were employed for the molecular-based species identification. Results showed that DNA barcodes enabled species-level identification of most of the individuals collected from the Park. Additionally, DNA barcoding unraveled the presence of at least six potential new and yet undescribed species-Amnemopsyche sp., Arctia sp., Deinypena sp., Hodebertia sp., Otroeda sp., and Palpita sp. The phylogenetic Maximum Likelihood using the combined dataset of all the newly assembled sequences from Nigeria showed that all species formed unique clades. The phylogenetic analyses provided evidence of population divergence in Euchromia lethe, Nyctemera leuconoe, and Deinypena lacista. This study thus illustrates the efficacy of DNA barcoding for species identification and discovery of potential new species, which demonstrates its relevance in biodiversity documentation of Nigerian moths. Future work should, therefore, extend to the creation of an exhaustive DNA barcode reference library comprising all species of moths from Nigeria to have a comprehensive insight on the diversity of moths in the country. Finally, we propose integrated taxonomic methods that would combine morphological, ecological, and molecular data in the identification and diversity studies of moths in Nigeria.

Ring roads and urban biodiversity: distribution of butterflies in urban parks in Beijing city and correlations with other indicator species

2019-09-29T02:14:29Z

题名: Ring roads and urban biodiversity: distribution of butterflies in urban parks in Beijing city and correlations with other indicator species 作者: Sing, KW; Luo, JS; Wang, WZ; Jaturas, N; Soga, M; Yang, XZ; Dong, H; Wilson, JJ 摘要: The capital of China, Beijing, has a history of more than 800 years of urbanization, representing a unique site for studies of urban ecology. Urbanization can severely impact butterfly communities, yet there have been no reports of the species richness and distribution of butterflies in urban parks in Beijing. Here, we conducted the first butterfly survey in ten urban parks in Beijing and estimated butterfly species richness. Subsequently, we examined the distribution pattern of butterfly species and analyzed correlations between butterfly species richness with park variables (age, area and distance to city center), and richness of other bioindicator groups (birds and plants). We collected 587 individual butterflies belonging to 31 species from five families; 74% of the species were considered cosmopolitan. The highest butterfly species richness and abundance was recorded at parks located at the edge of city and species richness was significantly positively correlated with distance from city center (p < 0.05). No significant correlations were detected between the species richness and park age, park area and other bioindicator groups (p > 0.05). Our study provides the first data of butterfly species in urban Beijing, and serves as a baseline for further surveys and conservation efforts.

High-throughput terrestrial biodiversity assessments: mitochondrial metabarcoding, metagenomics or metatranscriptomics?

2019-09-29T02:13:55Z

题名: High-throughput terrestrial biodiversity assessments: mitochondrial metabarcoding, metagenomics or metatranscriptomics? 作者: John-James Wilson; Guo-Jie Brandon-Mong; Han-Ming Gan; Kong-Wah Sing 摘要:

Consensus on the optimal high-throughput sequencing (HTS) approach to examine biodiversity inmixed terrestrial arthropod samples has not been reached. Metatranscriptomics could increase the pro-portion of taxonomically informative mitochondrial reads in HTS outputs but has not been investigatedfor terrestrial arthropod samples. We compared the efficiency of 16S rRNA metabarcoding, metagenom-ics and metatranscriptomics for detecting species in a mixed terrestrial arthropod sample (pooled DNA/RNA from 38 taxa). 16S rRNA metabarcoding and nuclear rRNA-depleted metatranscriptomics had thehighest detection rate with 97% of input species detected. Based on cytochrome c oxidase I, metage-nomics had the highest detection rate with 82% of input species detected, but metatranscriptomicsproduced a larger proportion of reads matching (Sanger) reference sequences. Metatranscriptomicswith nuclear rRNA depletion may offer advantages over metabarcoding through reducing the numberof spurious operational taxonomic units while retaining high detection rates, and offers natural enrich-ment of mitochondrial sequences which may enable increased species detection rates compared withmetagenomics.

Complete mitochondrial genome of the Thai Red Junglefowl (Gallus gallus) and phylogenetic analysis

2018-09-27T02:48:10Z

题名: Complete mitochondrial genome of the Thai Red Junglefowl (Gallus gallus) and phylogenetic analysis 作者: Chatmongkon Suwannapoom; Ya-Jiang Wu; Xing Chen; Adeniyi C. Adeola; Jing Chen; Wen-Zhi Wang

DNA barcoding of economically important freshwater fish species from north- central Nigeria uncovers cryptic diversity

2018-09-20T06:33:35Z

题名: DNA barcoding of economically important freshwater fish species from north- central Nigeria uncovers cryptic diversity 作者: Oluyinka A. Iyiola; Adeniyi C. Adeola; Moshood K. Mustapha; Chioma G. Nzeh; Segun O. Oladipo; Ifeanyi C. Nneji; Agboola O. Okeyoyin; Christopher D. Nwani; Obih A. Ugwumba; Adiaha A. A. Ugwumba; Emmanuel O. Faturoti; Yun-yu Wang; Jing Chen; Wen-Zhi Wang 摘要:

This study examines the utility of morphology and DNA barcoding in species identi-fication of freshwater fishes from north- central Nigeria. We compared moleculardata (mitochondrial cytochrome c oxidase subunit I (COI) sequences) of 136 de novosamples from 53 morphologically identified species alongside others in GenBank andBOLD databases. Using DNA sequence similarity- based (≥97% cutoff) identificationtechnique, 50 (94.30%) and 24 (45.30%) species were identified to species level usingGenBank and BOLD databases, respectively. Furthermore, we identified cases oftaxonomic problems in 26 (49.00%) morphologically identified species. There werealso four (7.10%) cases of mismatch in DNA barcoding in which our query sequencein GenBank and BOLD showed a sequence match with different species names.Using DNA barcode reference data, we also identified four unknown fish samplescollected from fishermen to species level. Our Neighbor- joining (NJ) tree analysisrecovers several intraspecific species clusters with strong bootstrap support (≥95%).Analysis uncovers two well- supported lineages within Schilbe intermedius. TheBayesian phylogenetic analyses of Nigerian S. intermedius with others from GenBankrecover four lineages. Evidence of genetic structuring is consistent with geographicregions of sub- Saharan Africa. Thus, cryptic lineage diversity may illustrate species’adaptive responses to local environmental conditions. Finally, our study underscoresthe importance of incorporating morphology and DNA barcoding in species identifi-cation. Although developing a complete DNA barcode reference library for Nigerianichthyofauna will facilitate species identification and diversity studies, taxonomic re-visions of DNA sequences submitted in databases alongside voucher specimens arenecessary for a reliable taxonomic and diversity inventory.