scholarly journals Morphological and molecular identification of Pfenderius heterocaeca (Trematode: Paramphistomoidea) from Sumatran elephant (Elephas maximus sumatranus)

2019 ◽  
Vol 12 (8) ◽  
pp. 1341-1345 ◽  
Author(s):  
Lintang Winantya Firdausy ◽  
Rahmania Prahardani ◽  
Lu'lu' Sahara Wusahaningtyas ◽  
Soedarmanto Indarjulianto ◽  
Muhammad Wahyu ◽  
...  
Keyword(s):  
Molecular Identification ◽  
Internal Transcribed Spacer ◽  
National Park ◽  
Deoxyribonucleic Acid ◽  
Molecular Characteristics ◽  
Morphological Identification ◽  
Way Kambas National Park ◽  
Second Internal Transcribed Spacer ◽  
Specific Species ◽  
Close Genetic Relationship

Background and Aim: Paramphistomiasis is common in tropical countries such as Indonesia and affects livestock and various endemic wild animals such as Sumatran elephants. However, the specific species of paramphistomoid worm that causes paramphistomiasis are rarely reported. The study aims at identifying paramphistomoid worm that infects Sumatran elephants. Materials and Methods: Flukes were collected from the feces of five semi-captive Sumatran elephants that lived at Tegal Yoso Elephant Response Unit in Way Kambas National Park, in 2018, after treatment of oxyclozanide 1 g at the dose of approximately 5-8 mg/kg of body weight. Eight paramphistomoid worms were flattened and stained in Semichon's carmine for morphological identification, and five other worms were used for molecular identification at second internal transcribed spacer (ITS-2) of ribosomal deoxyribonucleic acid sequence. Results: Forty-five flukes were collected from five Sumatran elephants in Lampung, Indonesia. Eight paramphistomoid worms were morphologically identified as Pfenderius heterocaeca> and five isolates did not show any variation in ITS-2. Phylogenetic analysis showed that there was a close genetic relationship between our sample and Chiorchis fabaceus that had a family similar to the samples. Conclusion: Based on the morphological and molecular characteristics, the paramphistomoids found in Sumatran elephant on Way Kambas National Park are P. heterocaeca. Keywords: internal transcribed spacer-2, paramphistomiasis, Pfenderius spp., Sumatran elephant.

scholarly journals ISOLASI KHAMIR DARI BATANG TANAMAN TEBU DAN IDENTIFIKASINYA BERDASARKAN SEKUENS INTERNAL TRANSCRIBED SPACER

2019 ◽  
Vol 6 (1) ◽  
pp. 39
Author(s):  
Ika Anggraini ◽  
Rejeki Siti Ferniah ◽  
Endang Kusdiyantini
Keyword(s):  
Molecular Identification ◽  
Internal Transcribed Spacer ◽  
Saccharum Officinarum ◽  
Potato Dextrose Agar ◽  
Cell Diameter ◽  
Morphological Identification ◽  
Carbohydrate Fermentation ◽  
A Cell ◽  
Internal Transcribed Spacer Sequences ◽  
Biochemical Identification

Isolation of Yeasts from Sugarcane Stems and Their Identification Based on Internal Transcribed Spacer Sequences ABSTRACTFermentative yeasts used in food, health, and energy industries need to be explored to discover their potential. The purpose of this study was to obtain fermentative yeast isolates from sugarcane stems and subsequently to undertake morphological, biochemical, and molecular identification. The isolation of epiphytic and endophytic yeasts was carried out by spread plate method using sugarcane soak water and sugarcane juice on potato dextrose agar (PDA) and yeast-glucose-peptone (YGP) agar media. Morphological identification was based on macroscopic and microscopic observations. Biochemical identification was performed using carbohydrate fermentation and 50%-glucose media tests. Selected isolates were identified molecularly using Internal Transcribed Spacer (ITS). Seven yeast isolates were obtained, of which isolate Ed 1B was selected. Isolate ED 1B was of round colonies, creamy white colour, shiny, embossed, and wavy appearance, ovoid cell shape with a cell diameter of 4.74 µm. It had budding cells, was able to ferment glucose and sucrose (but not lactose), and grew on 50 %-glucose media. Results of BLAST showed that isolates Ed 1B had 99% homology with Kodamaea ohmeri.Keywords: isolation, ITS, molecular identification, Saccharum officinarum L., yeast ABSTRAKKhamir fermentatif yang digunakan dalam industri pangan, kesehatan dan energi perlu dieksplorasi untuk mengetahui potensinya. Tujuan penelitian ini adalah untuk memperoleh isolat khamir fermentatif dari batang tebu dan untuk kemudian diidentifikasi secara morfologi, biokimia dan molekuler. Isolasi khamir epifit dan endofit dilakukan dengan metode cawan sebar dari air rendaman tebu dan jus tebu pada media potato dextrose agar (PDA) dan yeast-glucose-peptone (YGP). Identifikasi morfologi berdasarkan pengamatan makroskopis dan mikroskopis. Identifikasi biokimia menggunakan uji fermentasi karbohidrat dan uji media glukosa 50%. Isolat terpilih diidentifikasi molekuler menggunakan Internal Transcribed Spacer (ITS). Hasil isolasi memperoleh 7 isolat khamir. Satu isolat terpilih (Ed 1B) didapatkan dan memiliki ciri-ciri koloni bulat, putih krem, mengkilap, timbul, bergelombang, bentuk sel ovoid dengan diameter sel 4,74 µm, memiliki budding cell, mampu memfermentasi glukosa dan sukrosa, tidak memfermentasi laktosa, serta tumbuh pada media glukosa 50%. Hasil BLAST menunjukkan bahwa isolat Ed 1B memiliki homologi 99% dengan Kodamaea ohmeri.Kata Kunci: identifikasi molekuler, isolasi, ITS, khamir, Saccharum officinarum L.

scholarly journals First record and molecular identification of Toxocara cati in a Pallas’ cat Otocolobus manul from Kyrgyzstan

2016 ◽  
Vol 53 (3) ◽  
pp. 281-284 ◽  
Author(s):  
M. Heddergott ◽  
K. Zhumabai Uulu ◽  
A.N. Barashkova ◽  
A.C. Frantz
Keyword(s):  
Molecular Identification ◽  
Ribosomal Dna ◽  
Internal Transcribed Spacer ◽  
Morphological Characteristics ◽  
First Record ◽  
Toxocara Cati ◽  
Conservation Implication ◽  
In The Wild ◽  
Second Internal Transcribed Spacer ◽  
Genetic Barcoding

Summary In the present paper, we the report the first documented occurrence in the wild of Toxocara cati in the sole representative of the genus Otocolobus, the Pallas’ cat. The identity of the parasite was confirmed by morphological characteristics and by genetic barcoding of the second internal transcribed spacer of ribosomal DNA. The morphological measures of the T. cati specimens from the Kyrgyz Pallas’ cat were comparable to values reported. We discuss the conservation implication of our find.

scholarly journals Second internal transcribed spacer (ITS-2) as genetic marker for molecular characterization of Sarcoptes scabiei in rabbits from several areas of East Java, Indonesia

2021 ◽  
Vol 32 (4) ◽  
pp. 701-705
Author(s):  
Nunuk Dyah Retno Lastuti ◽  
Nur Rusdiana ◽  
Poedji Hastutiek
Keyword(s):  
Sequence Analysis ◽  
Internal Transcribed Spacer ◽  
Polymerase Chain Reaction Amplification ◽  
Clinical Signs ◽  
Evolutionary Genetics ◽  
Sarcoptes Scabiei ◽  
Nucleotide Sequence Analysis ◽  
Molecular Characteristics ◽  
Close Relationship ◽  
Second Internal Transcribed Spacer

Abstract Objectives The purpose of this study is to use the second internal transcribed spacer (ITS-2) to determine the molecular characteristics of Sarcoptes scabiei in rabbits from several areas of East Java. Methods Collecting S. scabiei mites from rabbits with clinical signs of scabies; DNA extraction with minikit QIAamp DNA; polymerase chain reaction amplification; nucleotide sequence analysis; homology and phylogenetic tree using the Neighbor-Joining method in the program molecular evolutionary genetics analysis-7 (MEGA-7). Results Sequence analysis of ITS-2 S. scabiei from five regions in East Java showed an identity >91.23% with isolates from China (KX695125.1). The phylogenetic analysis of ITS-2 S. scabiei from Mojokerto rabbits has a close relationship with AB82977.1; Surabaya and Nganjuk rabbits are closely related to KX695125.1; while Sidoarjo and Pasuruan rabbits are closely related to EF514469.2. and AB369384.1. Conclusions The homology analysis of all samples showed identity of more than 91.23% with isolate China (KX695125.1). The sequences of ITS-2 gen of S. scabiei from rabbits in several areas were relatively close to S. scabiei obtain various hosts from National Centre for Biotechnology Information (NCBI) data.

THE ESSENTIAL CONTRIBUTION OF CAPTIVE SUMATRAN ELEPHANT IN ELEPHANT TRAINING CENTER, WAY KAMBAS NATIONAL PARK FOR WILDLIFE GENETICS CONSERVATION

2020 ◽  
Vol 6 (1) ◽  
Author(s):  
Elly Lestari Rustiati ◽  
Priyambodo Priyambodo ◽  
Yanti Yulianti ◽  
Eko Agus Srihanto ◽  
Dian Neli Pratiwi ◽  
...  
Keyword(s):  
National Park ◽  
In Situ Conservation ◽  
Training Center ◽  
Conservation Effort ◽  
In The Wild ◽  
Wildlife Genetics ◽  
Way Kambas National Park ◽  
Human Conflict ◽  
Essential Contribution

Way Kambas National Park (WKNP) is home of five protected big mammals including sumatran elephants.  It shares its border with 22 of 37 villages surrounding the national park.  Understanding their existence in the wild is a priority, and  wildlife genetics is a crucially needed. Besides poaching and habitat fragmentation, wildlife-human conflict is one big issue.  Elephant Training Center (ETC) in WKNP is built for semi in-situ conservation effort on captive sumatran elephants that mainly have conflict histories with local people.  Participative observation and bio-molecular analysis were conducted to learn the importance of captive Sumatran elephant for conservation effort.  Through captive sumatran elephants, database and applicable methods are expected to be developed supporting the conservation of their population in the wild.  Participative observation and molecular identification was carried on captive sumatran elephants in ETC, WKNP under multiple year Terapan grant of Ministry of Research and Technology Higher Education, Indonesia. Gene sequence and cytological analyses showed that the captive sumatran elephants are closely related and tend to be domesticated.  Translocation among ETC to avoid inbreeding, and maintaining the captive sumatran elephant as natural as possible are highly recommended. Developing genetic database can be a reference for both captive and wild sumatran elephants.

scholarly journals WildTermitomycesSpecies Collected from Ondo and Ekiti States Are More Related to African Species as Revealed by ITS Region of rDNA

2012 ◽  
Vol 2012 ◽  
pp. 1-5 ◽  
Author(s):  
Victor Olusegun Oyetayo
Keyword(s):  
Sequence Analysis ◽  
Phylogenetic Tree ◽  
Molecular Identification ◽  
Internal Transcribed Spacer ◽  
Its Region ◽  
Its Sequence ◽  
African Countries ◽  
African Species ◽  
Its Sequence Analysis ◽  
Degree Of Similarity

Molecular identification of eighteenTermitomycesspecies collected from two states, Ondo and Ekiti in Nigeria was carried out using the internal transcribed spacer (ITS) region. The amplicons obtained from rDNA ofTermitomycesspecies were compared with existing sequences in the NCBI GenBank. The results of the ITS sequence analysis discriminated between all theTermitomycesspecies (obtained from Ondo and Ekiti States) andTermitomycessp. sequences obtained from NCBI GenBank. The degree of similarity of T1 to T18 to gene ofTermitomycessp. obtained from NCBI ranges between 82 and 99 percent.Termitomycesspecies from Garbon with ascension number AF321374 was the closest relative of T1 to T18 except T12 that has T. eurhizus and T. striatus as the closet relative. Phylogenetic tree generated with ITS sequences obtained from NCBI GenBank data revealed that T1 to T18 are more related toTermitomycesspecies indigenous to African countries such as Senegal, Congo, and Gabon.

scholarly journals Intragenomic variation in the second internal transcribed spacer of the ribosomal DNA of species of the genera Culex and Lutzia (Diptera: Culicidae)

2011 ◽  
Vol 106 (1) ◽  
pp. 01-08 ◽  
Author(s):  
Fabiana Tavares Vesgueiro ◽  
Bruna Demari-Silva ◽  
Rosely dos Santos Malafronte ◽  
Maria Anice Mureb Sallum ◽  
Mauro Toledo Marrelli
Keyword(s):  
Ribosomal Dna ◽  
Internal Transcribed Spacer ◽  
Intragenomic Variation ◽  
Second Internal Transcribed Spacer

scholarly journals Sequences of the second internal transcribed spacer of ribosomal DNA for three species of Trichostrongylus (Nematoda: Trichostrongylidae) from sheep in Russia

2007 ◽  
Vol 44 (2) ◽  
pp. 43-46 ◽  
Author(s):  
D. Kuznetsov ◽  
N. Kuznetsova
Keyword(s):  
Dna Sequence ◽  
Intraspecific Variation ◽  
Ribosomal Dna ◽  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Moscow Region ◽  
Dna Sequence Data ◽  
Interspecific Differences ◽  
Second Internal Transcribed Spacer ◽  
First Time

AbstractFor the first time, DNA sequence data were obtained for three species of Trichostrongylus from Russia. Internal transcribed spacer (ITS-2) of ribosomal DNA was sequenced for T. axei, T. colubriformis and T. probolurus from sheep from the Moscow region. ITS-2 rDNA length was estimated as 238 nucleotides for T. colubriformis and T. probolurus and 237 nucleotides for T. axei. The G+C content of the ITS-2 sequences of T. colubriformis, T. axei and T. probolurus were 31 %, 32 % and 34 % respectively. The level of interspecific differences in ITS-2 of rDNA of T. axei, T. probolurus and T. colubriformis ranged from 3 to 4 %. The ITS-2 sequences from the Russian specimens were compared with those of T. axei, T. probolurus and T. colubriformis from Australia and Germany. Intraspecific variation ranged from 0 % in T. colubriformis to 3.0 % in T. axei.

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