BARCODING DNA IKAN HIAS LAHAN GAMBUT

Perairan gambut merupakan ekosistem unik yang memiliki kekayaan biodiversitas ikan, sebagian besar di antaranya memiliki potensi sebagai ikan hias. Penelitian ini dilakukan untuk melakukan identifikasi dan analisis keragaman genetik, karakter genetik, jarak genetik, dan pohon kekerabatan ikan-ikan yang mendiami perairan gambut Cagar Biosfere Bukit Batu Provinsi Riau. Tahap pertama penelitian ini adalah identifikasi secara morfologi terhadap 29 ikan hasil koleksi yang potensial sebagai ikan hias. Selanjutnya amplifikasi dan alignment 675 bp (base pair) dari 90 runutan parsial cytochrome c oxidase subunit 1 (COI). Hasil penelitian menunjukkan ikan yang diidentifikasi dapat dikelompokkan menjadi enam famili, yaitu Balontidae terdiri atas tiga spesies (12,5%); Cyprinidae 13 spesies (54,17%); Cobitidae satu spesies (4,17%); Siluridae dua spesies (8,3%); Datnoidae satu spesies (4,17%); dan Bagridae empat spesies (16,67%). Beberapa spesies memiliki perbedaan genetik intraspesies lebih dari 3%. Analisis kekerabatan dan clustering ikan hias lahan gambut berdasarkan gen COI memiliki nilai bootstrap 87-99 per ulangan.Peat is a unique ecosystem which a high fish biodiversity, and most of them are potential as ornamental fish. This research was conducted to identify and analyze genetic diversity, genetic code, genetic distances, and phylogenies of the fish that inhabit in the Bukit Batu Biosfere Reserves, Riau Province. The first stage of this study was identification of 29 fish species that potential as ornamental fish by using morphological character. The further stages were amplification and alignment of 675 base pairs of 90 partial sequences of cytochrome c oxidase subunit 1 (COI). Results showed that the identification based on COI could be classified into six families. These Families were Balontidae, Cyprinidae, Cobitidae, Siluridae, Datnoidae, and Bagridae which consist of three species (12.5%), 13 species (54.17%), one species (4.17%), two species (8.3%), one species (4.17%), and four species (16.67%), respectively. Some clustered have intra-species genetic divergence more than 3%. Phylogenetic and clustering analysis showed all of the OTU (0perational Taxonomic Unit) has a high bootstrap permutation of 87-99.

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Revision of moles in the genus Scapanus

Therya ◽

10.12933/therya-21-1174 ◽

2021 ◽

Vol 12 (2) ◽

pp. 275-281

Author(s):

Sergio Ticul Alvarez Castañeda ◽

Patricia Cortés-Calva

Keyword(s):

Cytochrome C ◽

Cytochrome C Oxidase ◽

Genetic Distances ◽

Valid Species ◽

Bootstrap Support ◽

Oxidase Subunit ◽

Morphological Studies ◽

Subspecies Level ◽

Taxonomic Changes ◽

Morphological Differences

Scapanus latimanus is a species with many morphological differences among its populations. This variation is associated with multiple taxonomic changes at the species or subspecies level. This study incorporates genetic analyses and comparisons with previous morphological studies to propose a better understanding of the latimanus complex. Mitochondrial markers (cytochrome b; cytochrome c oxidase subunit I; and cytochrome c oxidase subunit III) were sequenced to construct a phylogeny for the subfamily Scalopinae in North America. Genetic distances ranged from 2.49 to 10.50 % among geographic areas. Results identified three monophyletic clades with high bootstrap support values. Based on our phylogenetic analysis and previous morphological analyses, we confirm S. anthonyi from San Pedro Mártir as a valid species and propose that S. occultus from southern California and northern Baja California peninsula be considered as a species

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Three new species of the primitively segmented spider genus Songthela (Araneae, Mesothelae) from Guizhou Province, China

ZooKeys ◽

10.3897/zookeys.1037.62916 ◽

2021 ◽

Vol 1037 ◽

pp. 57-71

Author(s):

Zhaoyang Chen ◽

Dengqing Li ◽

Daiqin Li ◽

Xin Xu

Keyword(s):

New Species ◽

Cytochrome C ◽

Cytochrome C Oxidase ◽

Dna Barcode ◽

Morphological Characters ◽

Molecular Data ◽

Genetic Distances ◽

Guizhou Province ◽

Oxidase Subunit ◽

Three New Species

We diagnose and describe three new species of the primitively segmented spider genus Songthela from Guizhou Province, China, based on morphological characters and molecular data: S. liuisp. nov. (♂♀), S. tianzhusp. nov. (♂♀), and S. yupingsp. nov. (♂♀). We provide the genetic distances within and among the three new species based on the DNA barcode gene, cytochrome c oxidase subunit I (COI) to support our descriptions. We also provide the COI GenBank accession codes for the three new species for future identification.

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Can DNA barcoding be used to identify closely related Clunio Haliday, 1855 species (Diptera: Chironomidae, Orthocladiinae)?

Zootaxa ◽

10.11646/zootaxa.4927.1.1 ◽

2021 ◽

Vol 4927 (1) ◽

pp. 1-8

Author(s):

PARASKEVA MICHALOVA ◽

VALERIA LENCIONI ◽

MOMCHIL NENOV ◽

SVETOSLAV NIKOLOV

Keyword(s):

Cytochrome C ◽

Dna Barcoding ◽

Cytochrome C Oxidase ◽

Methodological Approach ◽

Dna Barcode ◽

Mitochondrial Cytochrome ◽

Base Pairs ◽

Oxidase Subunit ◽

Gene Coi ◽

Mitochondrial Cytochrome C

DNA barcoding based on a fragment of mitochondrial Cytochrome C Oxidase subunit 1 gene (COI) was applied to the two chironomids Clunio balticus Heimbach (690 base pairs) and C. ponticus Michailova (691 base pairs). The two species differed by one deletion in the nucleotide sequence Adenine. However, the 658-nucleotide long sequences of DNA from the mitochondrial Cytochrome C Oxidase subunit 1 gene (COI) of C. balticus and C. ponticus were identical upon comparison. Further, they compared with homologous sequences for C. marinus Holiday and C. tsushimensis Tokunaga from the Barcode of Life (BOLD) database and the results plotted as a weighted graph, where C. tsushimensis, C. marinus and C. balticus C. ponticus formed three almost equidistant groups. From this, we established that the genetic distance between the respective COI sequences of C. balticus and C. ponticus is minimal, indicating a close relationship between the species indicative of recent common origin. However, the comparative analysis between C. tsushimensis, C. marinus, C. balticus and C. ponticus showed a wider divergence in their respective nucleotide sequences. Overall, our results emphasized that the COI region does not work well as a DNA barcode to identify species within the Clunio genus. Either longer sequences or a multifaceted methodological approach, including morphology, cytogenetic and ecology is needed to distinguish some members of Clunio genus.

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A new species and three subspecies of the desert shrew (Notiosorex) from the Baja California peninsula and California

Journal of Mammalogy ◽

10.1093/jmammal/gyaa045 ◽

2020 ◽

Vol 101 (3) ◽

pp. 872-886

Author(s):

Issac Camargo ◽

Sergio Ticul Álvarez-Castañeda

Keyword(s):

Cytochrome C ◽

Cytochrome C Oxidase ◽

Baja California ◽

Colorado River ◽

Phylogenetic Analyses ◽

Morphological Characteristics ◽

Genetic Distances ◽

Baja California Peninsula ◽

Bootstrap Support ◽

Oxidase Subunit

Abstract Desert shrews of the genus Notiosorex comprise four species with morphological characteristics that are difficult to distinguish among the species. Indeed, N. cockrumi was described using only genetic markers. Based on molecular divergence documented in N. crawfordi, we hypothesize that a fifth species is present in the Baja California peninsula. Genetic variation at the species level was analyzed using individuals from locations west of the Colorado River in the Baja California peninsula, Mexico, and California, United States. Molecular markers of mitochondrial origin (cytochrome b, 1,140 bp; cytochrome c oxidase subunit I, 542 bp; and cytochrome c oxidase subunit III, 672 bp), as well as the nuclear intron 7 of the beta fibrinogen gene (385 bp) were used to construct a phylogeny for species of the genus Notiosorex. Genetic distances of 12.46–15.58% between west and east of the Colorado River were obtained using p-distance models. Our phylogenetic analyses showed almost identical topologies, placing populations from west of the Colorado River in three monophyletic clades with high bootstrap support values. Results of molecular phylogenetic identity among shrews of the genus Notiosorex support the existence of an undescribed, polytypic species of Notiosorex west of the Colorado River.

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