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

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.

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Sequence Analysis of the Second Internal Transcribed Spacer of Ribosomal DNA in Anopheles oswaldoi (Diptera: Culicidae)

Journal of Medical Entomology ◽

10.1093/jmedent/36.6.679 ◽

1999 ◽

Vol 36 (6) ◽

pp. 679-684 ◽

Cited By ~ 31

Author(s):

Mauro T. Marrelli ◽

Rosely S. Malafronte ◽

Carmen Flores-Mendoza ◽

Ricardo Lourenço-De-Oliveira ◽

Judith K. Kloetzel ◽

...

Keyword(s):

Sequence Analysis ◽

Ribosomal Dna ◽

Internal Transcribed Spacer ◽

Second Internal Transcribed Spacer

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Detection and analysis of new psittacine beak and feather disease virus (PBFDv) nucleotide sequences

Journal of the Hellenic Veterinary Medical Society ◽

10.12681/jhvms.16070 ◽

2018 ◽

Vol 68 (4) ◽

pp. 653

Author(s):

M VUCICEVIC ◽

I VUCICEVIC ◽

D DAVITKOV ◽

J STEVANOVIC ◽

...

Keyword(s):

Sequence Analysis ◽

Disease Virus ◽

Clinical Signs ◽

Nucleotide Sequences ◽

Histopathological Evaluation ◽

Close Relationship ◽

Pcr Products ◽

Pcr Method ◽

Feather Disease Virus

Psittacine beak and feather disease (PBFD) affects a large number of Psittaciformes species. In this study, five White Cockatoo parrots (Cacatua alba) with clinical signs of PBFD were examined. After euthanasia, a full necropsy of parrots was performed and organs with macroscopic changes were sampled for routine histopathological evaluation. To confirm the presence of psittacine beak and feather disease virus (PBFDv), feather samples were analyzed with the PCR method. Sequence analysis of the obtained PCR products indicated their close relationship (99%) to other PBFDv isolates. Six variable nucleotide sites were discovered, two missense and four silent mutations. This paper presents the evidence of new PBFDv sequence in Cockatoo species.

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Genetic and phenotypic variations of isolates of shrimp Taura syndrome virus found in Penaeus monodon and Metapenaeus ensis in Taiwan

Journal of General Virology ◽

10.1099/vir.0.80132-0 ◽

2004 ◽

Vol 85 (10) ◽

pp. 2963-2968 ◽

Cited By ~ 20

Author(s):

Yun-Shiang Chang ◽

Shao-En Peng ◽

Hon-Tsen Yu ◽

Feng-Chuan Liu ◽

Chung-Hsiung Wang ◽

...

Keyword(s):

Amino Acid ◽

Amino Acid Sequence ◽

Penaeus Monodon ◽

Clinical Signs ◽

Nucleotide Sequence Analysis ◽

Structural Protein ◽

Taura Syndrome Virus ◽

Metapenaeus Ensis ◽

Phenotypic Differences ◽

Close Relationship

Distinct Taura syndrome virus (TSV) isolates were found in Metapenaeus ensis (isolate Tw2KMeTSV), Penaeus monodon (isolate Tw2KPmTSV) and Litopenaeus vannamei (isolate Tw02LvTSV). Nucleotide sequence analysis of these three isolates revealed differences in the TSV structural protein (capsid protein precursor) gene orf2. TSV ORF2 amino acid sequence comparison and phylogenetic analysis suggested a comparatively close relationship between these three Taiwanese isolates and the Hawaiian isolate HI94TSV. In P. monodon specimens that were naturally and experimentally infected with the Tw2KPmTSV isolate, the virus was contained and shrimps showed no clinical signs of infection. However, when P. monodon was challenged with the Tw2KMeTSV isolate, the virus replicated freely. The ORF2 amino acid sequence of the Tw2KMeTSV isolate differed from that of isolate Tw2KPmTSV in four positions and these differences may account for their phenotypic differences, at least in terms of their ability to replicate in specific hosts.

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Molecular survey of the Thai herbal drug „Reo noi“ based on internal transcribed spacer (ITS1) nucleotide sequence analysis

Planta Medica ◽

10.1055/s-0030-1264305 ◽

2010 ◽

Vol 76 (12) ◽

Author(s):

P Rinthong ◽

W Paktipat ◽

W Caichampoo

Keyword(s):

Sequence Analysis ◽

Nucleotide Sequence ◽

Internal Transcribed Spacer ◽

Nucleotide Sequence Analysis ◽

Herbal Drug ◽

Molecular Survey

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Neofusicoccum spp. Associated with Stem Canker and Dieback of Blueberry in Chile

Plant Disease ◽

10.1094/pdis-93-11-1187 ◽

2009 ◽

Vol 93 (11) ◽

pp. 1187-1194 ◽

Cited By ~ 29

Author(s):

J. G. Espinoza ◽

E. X. Briceño ◽

E. R. Chávez ◽

J. R. Úrbez-Torres ◽

B. A. Latorre

Keyword(s):

Sequence Analysis ◽

Nucleotide Sequence ◽

Internal Transcribed Spacer ◽

Its Region ◽

Stem Canker ◽

Nucleotide Sequence Analysis ◽

Susceptible Cultivar ◽

Koch’S Postulates ◽

Pathogenicity Tests ◽

Koch's Postulates

Blueberry (Vaccinium spp.) plantings have significantly increased in Chile during the last decade and, currently, over 10,700 ha are cultivated throughout the country. Among other diseases, stem canker and dieback has been frequently observed in commercial plantations with incidences between 15 and 45%. The aim of this study was to identify and characterize Neofusicoccum spp. causing stem canker and dieback of blueberry in Chile. Three species, N. arbuti, N. australe, and N. parvum, were identified based on colony and conidia morphology, and nucleotide sequence analysis of the internal transcribed spacer (ITS) region (ITS1-5.8S-ITS2). These Neofusicoccum spp. were found alone or coexisting with Pestalotiopsis spp., Truncatella spp., or Phomopsis spp. Koch's postulates showed all Neofusicoccum spp. isolated from infected plants to be pathogenic when inoculated on blueberry fruit and twigs using both mycelia and conidia suspension. All blueberry cultivars tested, including, Brigitta, Bluecrop, Brightwell, Duke, Elliott, Misty, and O'Neal, were susceptible to Neofusicoccum spp. infection. Pathogenicity tests showed N. parvum to be the most virulent species and Elliott to be the most susceptible cultivar. This report represents the first description of N. arbuti, N. australe, and N. parvum as canker-causing agents on blueberry in Chile.

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

Veterinary World ◽

10.14202/vetworld.2019.1341-1345 ◽

2019 ◽

Vol 12 (8) ◽

pp. 1341-1345 ◽

Cited By ~ 1

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.

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