scholarly journals Kajian Penanda Genetik Gen Sitokrom b DNA Mitokondria Ikan Lais dari Sungai Kampar Riau

2018 ◽  
Vol 10 (1) ◽  
pp. 6
Author(s):  
Roza Elvyra ◽  
Dedy Duryadi Solihin
Keyword(s):  
Species Diversity ◽  
Molecular Marker ◽  
Phylogenetic Relationship ◽  
Cytochrome B ◽  
Mitochondrial Cytochrome ◽  
Cyt B ◽  
Phylogenetic Marker ◽  
Mitochondrial Cytochrome B ◽  
Cyt B Gene

The mitochondrial cytochrome b (cyt-b) gene as a phylogenetic marker of lais fish Kryptopterus schilbeides from Kampar River in Riau has been studied. This is a prelimininary research on the utility of cyt-b gene as a molecular marker to obtain species diversity and phylogenetic relationship among Kryptopterus fishes from Kampar River. The primers of L14841 and H15149 were used to amplify the cyt-b gene. The results showed that K. schilbeides has isoleusine at site-81 and metionine at site-114; K. schilbeides from Kampar River and K. schilbeides from GenBank form a phylogeny cluster at 45% value.

scholarly journals Partial sequence analysis of mitochondrial cytochrome B gene of Labeo calbasu of Bangladesh

2019 ◽  
Vol 5 (1) ◽  
pp. 25-30
Author(s):  
RA Begum ◽  
MT Alam ◽  
H Jahan ◽  
MS Alam
Keyword(s):  
Genetic Diversity ◽  
Cytochrome B ◽  
Tissue Sample ◽  
Sequence Similarity ◽  
Cytochrome B Gene ◽  
Mitochondrial Cytochrome ◽  
Cyt B ◽  
Multiple Sequence ◽  
Mitochondrial Cytochrome B ◽  
Cyt B Gene

Labeo calbasu (Family Cyprinidae) was studied at DNA level to know genetic diversity within and between species. The mitochondrial cytochrome b (cyt-b) gene of L. calbasu was sequenced and compared to the corresponding sequences of other Labeo species. DNA was isolated from the tissue sample of L. calbasu using phenol: chloroform extraction method. Forward and reverse primers were designed to amplify the target region of cytochrome b gene. A standard PCR protocol was used for the amplification of the desired region. Then, the forward and reverse sequences obtained were aligned and edited to finalize a length of 510 nucleotides which was submitted to NCBI genbank database. Nucleotide BLAST of this sequence at NCBI resulted 100% sequence similarity with L. calbasu sequence of the same region of cyt-b gene. Multiple sequence alignment of the sequence with seven more Labeo species sequences revealed 120 polymorphic sites, which have been mark of diversity among the species and might be used in molecular identification of the Labeo species. A constructed phylogenetic tree has shown relationship among the Labeo species. This research demonstrated the usefulness of mitochondrial DNA-based approach in species identification. Further, the data will provide appropriate background for studying genetic diversity within-species of the Labeo species in general and of L. calbasu in particular. J. Biodivers. Conserv. Bioresour. Manag. 2019, 5(1): 25-30

scholarly journals Molecular detection of cattle and buffalo species meat origin using mitochondrial cytochrome b (Cyt b) gene

2016 ◽  
Vol 2 (2) ◽  
pp. 177-182
Author(s):  
Sirazum Munira ◽  
Fatema Tuz Jahura ◽  
Md Munir Hossain ◽  
Mohammad Shamsul Alam Bhuiyan
Keyword(s):  
Cytochrome B ◽  
Genomic Dna ◽  
Molecular Technique ◽  
Mitochondrial Cytochrome ◽  
Cyt B ◽  
Dna Yield ◽  
Mitochondrial Cytochrome B ◽  
Meat Samples ◽  
Species Specific ◽  
Cyt B Gene

The study was conducted to adopt PCR based technique for identification of species origin from meat samples of cattle and buffalo using mitochondrial cytochrome b (Cyt b) gene fragment. A total of 42 ear tissue and meat samples were collected from different slaughterhouses and farms of Mymensingh, Bogra and Rangpur districts and stored in 96% ethanol at room temperature. Genomic DNA was extracted from all samples using GeNet Bio genomic DNA isolation kit. The average DNA yield of considered samples was found 204.57 ng/?l where the purity ranged from 1.82–1.99. Two (2) pair species-specific primers were used to amplify Cyt b gene fragments of 472 bp and 124 bp for cattle and buffalo, respectively. The PCR results revealed different species specific amplified fragments which could discriminate between cattle (472 bp) and buffalo (124 bp) species precisely from pure and mixed samples of those species. This study suggests an accurate molecular technique for identification of cattle and buffalo species meat origin and differentiates species present in adulterated meat samples. In conclusion, this DNA based technique could be utilized for prevention of malpractice in slaughterhouse and chain shops and thereby to protect consumer’s right.Asian J. Med. Biol. Res. June 2016, 2(2): 177-182

scholarly journals Molecular detection of goat and sheep meat origin using mitochondrial cytochrome b gene

2016 ◽  
Vol 45 (2) ◽  
pp. 41-45
Author(s):  
FT Jahura ◽  
S Munira ◽  
AKFH Bhuiyan ◽  
MR Hoque ◽  
MSA Bhuiyan
Keyword(s):  
Cytochrome B ◽  
Molecular Technique ◽  
Mitochondrial Cytochrome ◽  
Cyt B ◽  
Mitochondrial Cytochrome B ◽  
Indigenous Goat ◽  
Meat Species ◽  
Meat Samples ◽  
Species Specific ◽  
Cyt B Gene

The present study was conducted to discriminate between sheep and goat species meat origin utilizing mitochondrial cytochrome b (Cyt b) gene fragment. A total of 46 ear tissue and meat samples were collected from different slaughterhouses and farms of Mymensingh and Rangpur districts. Genomic DNA was extracted using GeNet Bio DNA isolation kit and DNA concentration and purity was quantified by NanoDrop spectrophotometer. Two pairs species specific primer were used to amplify Cyt b gene fragments. Selected primers were highly conserved across the breed within a species and worked well with the species of indigenous goat and sheep resulting similar size of the amplicons 330 and 585 bp respectively. The duplex PCR condition would enable to detect adulteration from goat and sheep mixed samples which revealed by two precise bands (330 and 585 bp) in a single reaction. This study suggests an accurate molecular technique for identification of sheep and goat meat species origin and differentiates species present in adulterate meat samples. In conclusion, this DNA based marker could be used for prevention of fraudulent practice in slaughterhouse and chain shops in Bangladesh.Bang. J. Anim. Sci. 2016. 45 (2): 41-45

Phylogeny of Old and New World Vultures (Aves: Accipitridae and Cathartidae) Inferred from Nucleotide Sequences of the Mitochondrial Cytochrome b Gene

1995 ◽  
Vol 50 (11-12) ◽  
pp. 868-882 ◽  
Author(s):  
Michael Wink
Keyword(s):  
Cytochrome B ◽  
New World ◽  
Genetic Relatedness ◽  
Nucleotide Sequences ◽  
Mitochondrial Cytochrome ◽  
Cyt B ◽  
Old World ◽  
Mitochondrial Cytochrome B ◽  
Close Relationship ◽  
Cyt B Gene

Abstract The molecular phylogeny of 11 Old World and 5 New World vultures was inferred from nucleotide sequences of the mitochondrial cytochrome b (cyt b) gene. According to this analysis carrion-feeding has evolved independently at least three times during evolution: 1.) In the New World vultures, which are clearly separated from vultures of the family Accipitridae; 2.) in the Neophron-Gypaetus clade which is positioned at the base of the Accipitrid tree and 3.) in the Gyps-Aegypius-complex which encloses the largest group of Old World vultures. Thus the genetic data clearly show that the carrion-feeding lifestyles and associated morphologies shared by New and Old World vultures are rather based on convergence than on close genetic relatedness. Employing the cyt b sequences of 12 other members of the Falconiformes and 10 members of the Ciconiiformes (sensu Sibley and Monroe, 1990) the phylogenetic relationship between the three clades of vultures and these other taxa was assessed. New World Vultures appear to share distant ancestry with storks but a close relationship is unlikely.

scholarly journals Genetic characterization and phylogenetic study of Indonesian indigenous catfish based on mitochondrial cytochrome B gene

2020 ◽  
Vol 13 (1) ◽  
pp. 96-103
Author(s):  
Dorothea Vera Megarani ◽  
Herjuno Ari Nugroho ◽  
Zahrah Prawita Andarini ◽  
Yura Dwi Risa B. R. Surbakti ◽  
Rini Widayanti
Keyword(s):  
Amino Acids ◽  
Amino Acid ◽  
Cytochrome B ◽  
Genetic Characterization ◽  
Phylogenetic Study ◽  
Cyt B ◽  
Phylogenetic Structure ◽  
Mitochondrial Cytochrome B ◽  
Sperata Seenghala ◽  
Cyt B Gene

Aim: This study aimed to determine the genetic characterization and phylogenetic structure of Indonesian indigenous catfish using cytochrome B (Cyt B) sequences. Materials and Methods: The genomes of 26 catfishes caught from nine rivers from nine different geographical locations around Indonesia were analyzed. The tissue isolation method was used to isolate the total genome of the fishes. Furthermore, polymerase chain reaction was done to amplify the mtDNA Cyt B using the CytBF and CytBR primers. Following sequencing, the analysis of genetic variation and the phylogenetic relationship was performed using MEGA version X software. Results: Cyt B gene sequencing attained a total of 1139 nucleotides encrypting 379 amino acids for all samples. The ClustalW alignment program using MEGA X software revealed 395 substituted nucleotides, which then translated into 63 amino acid variation sites among all 26 samples. No amino acids in catfish BB were different compared to catfish PM, MP, and KR2,3. Catfish MS had one modified amino acid; KR1 and KS had two different amino acids; BF had 38 different amino acids; EM had 31 different amino acids; and BSBJ had 26 different amino acids compared to catfish BB. The most significant alteration of amino acids was between catfish EM and BF (49 amino acids). Conclusion: Indonesian catfish were divided into five clades based on the Cyt B gene. Samples KR and MP (Sumatra); MS and BB (Kalimantan); and PM (Java) were clustered with Hemibagrus nemurus and Hemibagrus wyckioides (Bagridae family). Samples from Kalimantan (KS) and one sample of KR (KR1) from Sumatra were clustered with Sperata seenghala and Hemibagrus spilopterus (Bagridae family). Samples from Java (BSBJ) were clustered with Pseudolais pleurotaenia (Pangasiidae family). Samples EM (Java) were together with Mystus cavasius (Bagridae family). Samples from West Papua were clustered with Potamosilurus latirostris (Ariidae family).

Comparison of mitochondrial cytochrome b lineages and morphospecies of two avian malaria parasites of the subgenera Haemamoeba and Giovannolaia (Haemosporida: Plasmodiidae)

Zootaxa ◽  
2007 ◽  
Vol 1626 (1) ◽  
pp. 39-50 ◽  
Author(s):  
VAIDAS PALINAUSKAS ◽  
VLAD KOSAREV ◽  
ANATOLY SHAPOVAL ◽  
STAFFAN BENSCH ◽  
GEDIMINAS VALKINAS
Keyword(s):  
Cytochrome B ◽  
Avian Malaria ◽  
Passer Domesticus ◽  
Morphological Identification ◽  
Mitochondrial Cytochrome ◽  
Cyt B ◽  
Malaria Parasites ◽  
Mitochondrial Cytochrome B ◽  
The Baltic ◽  
Avian Malaria Parasites

PCR-based methods have been increasingly used in diagnosis of parasitic diseases. Over 40 morphospecies of avian malaria parasites of the genus Plasmodium have been described. However, only nine of them have been identified on the level of their mitochondrial cytochrome b (cyt b) gene lineages, which are frequently used in molecular biology studies of avian blood haemosporidian parasites. In this study, we linked two common mitochondrial cyt b lineages P-SGS1 and P-TURDUS1 with their morphospecies. Light infections with two species of malaria parasites of the subgenera Haemamoeba and Giovannolaia were isolated from naturally infected adult Hawfinches, Coccothraustes coccothraustes Linnaeus, on the Curonian Spit in the Baltic Sea. These parasites were inoculated to naive juveniles of the Common Crossbill, Loxia curvirostra Linnaeus, and House Sparrow, Passer domesticus Linnaeus. Heavy parasitemia of Plasmodium (Haemamoeba) relictum Grassi & Feletti, 1891 (lineage P-SGS1) and Plasmodium (Giovannolaia) circumflexum Kikuth, 1931 (P-TURDUS1) developed in the subinoculated Common Crossbills and House Sparrows, respectively, which enabled the detailed illustration of all main blood stages of these parasites and the deposition of their voucher specimens. The parasites of both lineages are actively transmitted in Europe and inhabit a broad range of avian hosts. Lineages closely related to P. relictum and P. circumflexum were identified. This study contributes to establishing of combined PCR-based and morphological identification of avian malaria parasites.

A phylogenetic analysis of Neotoma varia (Rodentia: Cricetidae), a rediscovered, endemic, and threatened rodent from Datil Island, Sonora, Mexico

Zootaxa ◽  
2010 ◽  
Vol 2647 (1) ◽  
pp. 51 ◽  
Author(s):  
SERGIO TICUL ÁLVAREZ-CASTAÑEDA ◽  
EVELYN RIOS
Keyword(s):  
Gulf Of California ◽  
Optimality Criteria ◽  
Mitochondrial Cytochrome ◽  
Cyt B ◽  
Mitochondrial Cytochrome B ◽  
Mitochondrial Cytochrome B Gene ◽  
Tree Topologies ◽  
Endangered Population ◽  
Low Levels ◽  
Cyt B Gene

The systematics of the rediscovered and threatened rodent, Neotoma varia, from Datil Island in the Gulf of California, was assessed using sequences from the mitochondrial cytochrome b gene (Cyt b) regarding specimens of N. albigula from Tiburon Island and populations on the mainland off Datil Island. Neotoma varia was originally described as a species and subsequently considered a subspecies, relegated to subspecific status based on morphologic characters and few specimens; no genetic analyses have been published. Bayesian inference, maximum-parsimony, maximumlikelihood, and distance optimality criteria based on 828-bp of the Cyt b gene from individuals representing 11 populations, converged on essentially identical tree topologies, consistent with the inclusion of N. varia within N. albigula. The population of Datil Island is related to specimens from Tiburon Island and the adjacent mainland populations showing low levels of genetic differentiation with other subspecies of N. albigula (0.2–1.4%). Previous morphologic analyses indicated inconstancy in characters regarding the holotype; however, N. varia is morphologically different in the oclusal view of the upper molars. Under these conditions, we consider N. varia as a subspecies of N. albigula. N. a. varia has a very specific habitat and is present only on a very small part of the island; in spite of low divergence regarding other N. albigula subspecies, N. a. varia possesses a genetic identity and needs to be considered as a critically endangered population.

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