The Experts below are selected from a list of 11256 Experts worldwide ranked by ideXlab platform
Samuel Zschokke - One of the best experts on this subject based on the ideXlab platform.
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Genetic Structure of the Wild Populations of the Indian Rhinoceros (Rhinoceros unicornis)
Indian National Science Academy, 2016Co-Authors: Samuel ZschokkeAbstract:Genetic Structure of the Wild Populations of the Indian Rhinoceros (Rhinoceros unicornis
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polymorphic microsatellite loci in the endangered indian Rhinoceros Rhinoceros unicornis
Molecular Ecology Notes, 2003Co-Authors: Samuel Zschokke, Barbara Gautschi, Bruno BaurAbstract:Eleven novel polymorphic microsatellite loci are presented for the highly endangered Indian (or greater one horned) Rhinoceros Rhinoceros unicornis (Mammalia: Rhinocerotidae). These will be used to analyse the genetic variability within and between the two remaining large populations of the Indian Rhinoceros and to manage captive breeding.
Bruno Baur - One of the best experts on this subject based on the ideXlab platform.
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polymorphic microsatellite loci in the endangered indian Rhinoceros Rhinoceros unicornis
Molecular Ecology Notes, 2003Co-Authors: Samuel Zschokke, Barbara Gautschi, Bruno BaurAbstract:Eleven novel polymorphic microsatellite loci are presented for the highly endangered Indian (or greater one horned) Rhinoceros Rhinoceros unicornis (Mammalia: Rhinocerotidae). These will be used to analyse the genetic variability within and between the two remaining large populations of the Indian Rhinoceros and to manage captive breeding.
Igor Filipovic - One of the best experts on this subject based on the ideXlab platform.
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the complete mitochondrial genome sequence of oryctes Rhinoceros coleoptera scarabaeidae based on long read nanopore sequencing
PeerJ, 2021Co-Authors: Michael J. Furlong, James P. Hereward, Gregor J. Devine, Igor Filipovic, Gordana Rasic, Kayvan EtebariAbstract:Background: The coconut Rhinoceros beetle (CRB, Oryctes Rhinoceros) is a severe and invasive pest of coconut and other palms throughout Asia and the Pacific. The biocontrol agent, Oryctes Rhinoceros nudivirus (OrNV), has successfully suppressed O. Rhinoceros populations for decades but new CRB invasions started appearing after 2007. A single-SNP variant within the mitochondrial cox1 gene is used to distinguish the recently-invading CRB-G lineage from other haplotypes, but the lack of mitogenome sequence for this species hinders further development of a molecular toolset for biosecurity and management programmes against CRB. Here we report the complete circular sequence and annotation for CRB mitogenome, generated to support such efforts.Methods: Sequencing data were generated using long-read Nanopore technology from genomic DNA isolated from a CRB-G female. The mitogenome was assembled with Flye v.2.5, using the short-read Illumina sequences to remove homopolymers with Pilon, and annotated with MITOS. Independently-generated transcriptome data were used to assess the O. Rhinoceros mitogenome annotation and transcription. The aligned sequences of 13 protein-coding genes (PCGs) (with degenerate third codon position) from O. Rhinoceros, 13 other Scarabaeidae taxa and two outgroup taxa were used for the phylogenetic reconstruction with the Maximum likelihood (ML) approach in IQ-TREE and Bayesian (BI) approach in MrBayes.Results: The complete circular mitogenome of O. Rhinoceros is 20,898 bp in length, with a gene content canonical for insects (13 PCGs, two rRNA genes, and 22 tRNA genes), as well as one structural variation (rearrangement of trnQ and trnI) and a long control region (6,204 bp). Transcription was detected across all 37 genes, and interestingly, within three domains in the control region. ML and BI phylogenies had the same topology, correctly grouping O. Rhinoceros with one other Dynastinae taxon, and recovering the previously reported relationship among lineages in the Scarabaeidae. In silico PCR-RFLP analysis recovered the correct fragment set that is diagnostic for the CRB-G haplogroup. These results validate the high-quality of the O. Rhinoceros mitogenome sequence and annotation.
Kayvan Etebari - One of the best experts on this subject based on the ideXlab platform.
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the complete mitochondrial genome sequence of oryctes Rhinoceros coleoptera scarabaeidae based on long read nanopore sequencing
PeerJ, 2021Co-Authors: Michael J. Furlong, James P. Hereward, Gregor J. Devine, Igor Filipovic, Gordana Rasic, Kayvan EtebariAbstract:Background: The coconut Rhinoceros beetle (CRB, Oryctes Rhinoceros) is a severe and invasive pest of coconut and other palms throughout Asia and the Pacific. The biocontrol agent, Oryctes Rhinoceros nudivirus (OrNV), has successfully suppressed O. Rhinoceros populations for decades but new CRB invasions started appearing after 2007. A single-SNP variant within the mitochondrial cox1 gene is used to distinguish the recently-invading CRB-G lineage from other haplotypes, but the lack of mitogenome sequence for this species hinders further development of a molecular toolset for biosecurity and management programmes against CRB. Here we report the complete circular sequence and annotation for CRB mitogenome, generated to support such efforts.Methods: Sequencing data were generated using long-read Nanopore technology from genomic DNA isolated from a CRB-G female. The mitogenome was assembled with Flye v.2.5, using the short-read Illumina sequences to remove homopolymers with Pilon, and annotated with MITOS. Independently-generated transcriptome data were used to assess the O. Rhinoceros mitogenome annotation and transcription. The aligned sequences of 13 protein-coding genes (PCGs) (with degenerate third codon position) from O. Rhinoceros, 13 other Scarabaeidae taxa and two outgroup taxa were used for the phylogenetic reconstruction with the Maximum likelihood (ML) approach in IQ-TREE and Bayesian (BI) approach in MrBayes.Results: The complete circular mitogenome of O. Rhinoceros is 20,898 bp in length, with a gene content canonical for insects (13 PCGs, two rRNA genes, and 22 tRNA genes), as well as one structural variation (rearrangement of trnQ and trnI) and a long control region (6,204 bp). Transcription was detected across all 37 genes, and interestingly, within three domains in the control region. ML and BI phylogenies had the same topology, correctly grouping O. Rhinoceros with one other Dynastinae taxon, and recovering the previously reported relationship among lineages in the Scarabaeidae. In silico PCR-RFLP analysis recovered the correct fragment set that is diagnostic for the CRB-G haplogroup. These results validate the high-quality of the O. Rhinoceros mitogenome sequence and annotation.
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The complete mitochondrial genome sequence of Oryctes Rhinoceros (Coleoptera: Scarabaeidae) based on long-read nanopore sequencing
2020Co-Authors: Igor Filipović, Michael J. Furlong, James P. Hereward, Gordana Rašić, Gregor J. Devine, Kayvan EtebariAbstract:Abstract The coconut Rhinoceros beetle (CRB, Oryctes Rhinoceros) is a severe and invasive pest of coconut and other palms throughout Asia and the Pacific. The biocontrol agent, Oryctes Rhinoceros nudivirus (OrNV), has successfully suppressed O. Rhinoceros populations for decades but new CRB invasions started appearing after 2007. A single-SNP variant within the mitochondrial cox1 gene is used to distinguish the recently-invading CRB-G lineage from other haplotypes, but the lack of mitogenome sequence for this species hinders further development of a molecular toolset for biosecurity and management programmes against CRB. Here we report the complete circular sequence and annotation for CRB mitogenome, generated to support such efforts. Sequencing data were generated using long-read Nanopore technology from genomic DNA isolated from a CRB-G female. The mitochondrial genome was assembled with Flye v.2.5, using the short-read Illumina sequences to remove homopolymers with Pilon, and annotated with MITOS. Independently-generated transcriptome data were used to assess the O. Rhinoceros mitogenome annotation and transcription. The aligned sequences of 13 protein-coding genes (PCGs) (with degenerate third codon position) from O. Rhinoceros, 13 other Scarabaeidae taxa and two outgroup taxa were used for the phylogenetic reconstruction with the Maximum likelihood (ML) approach in IQ-TREE and Bayesian (BI) approach in MrBayes. The complete circular mitochondrial genome of O. Rhinoceros is 20,898 bp-long, with a gene content canonical for insects (13 PCGs, 2 rRNA genes, and 22 tRNA genes), as well as one structural variation (rearrangement of trnQ and trnI) and a long control region (6,204 bp). Transcription was detected across all 37 genes, and interestingly, within three domains in the control region. ML and BI phylogenies had the same topology, correctly grouping O. Rhinoceros with one other Dynastinae taxon, and recovering the previously reported relationship among lineages in the Scarabaeidae. In silico PCR-RFLP analysis recovered the correct fragment set that is diagnostic for the CRB-G haplogroup. These results validate the high-quality of the CRB mitogenome sequence and annotation.
Soon Guan Tan - One of the best experts on this subject based on the ideXlab platform.
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genetic variation studies in oryctes Rhinoceros l coleoptera scarabaeidae using single locus dna microsatellite markers
Journal of entomology and zoology studies, 2015Co-Authors: Manjeri Gnanasegaram, R. Muhamad, Soon Guan TanAbstract:Oryctes Rhinoceros, a serious pest in young oil palm replanting areas, often causes reduced plant productivity and plant death. Common control measures are species specific pheromone traps; however discrepancy in attraction toward the pheromone traps has raised doubts on the possibility of cryptic species complex in O. Rhinoceros. To ascertain the possibilities of a cryptic species complex; species specific single locus DNA microsatellite markers were used to study the genetic variation within and between O. Rhinoceros populations. Using 30 species specific single locus DNA microsatellite markers, O. Rhinoceros beetles from six populations originating from Malaysia and Indonesia revealed no isolated gene pool. Pairwise population differentiation and gene flow values further revealed low to moderate differentiation and a high gene flow between populations. Beetles of different population interactedrnfreely, permitting gene flow between closely and distantly located populations; thus ruling out the possibility for cryptic species complex in O. Rhinoceros.
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development of single locus dna microsatellite markers in oryctes Rhinoceros linnaeus using 5 anchored rams pcr method
Journal of Genetics, 2014Co-Authors: G Manjeri, R. Muhamad, Q Z Faridah, Soon Guan TanAbstract:Oryctes Rhinoceros, commonly known as Rhinoceros beetle, is an important pest in oil palm plantations. The presence of this pest in replanting sites as early as six months after replanting has alarmed planters due to the possibility of increased crop damage (Samsuddin et al. 1993; Kamarudin and Wahid 1997). Being a nocturnal animal with a destructive feeding habit, it is difficult to eliminate this pest (Young 1986). Pheromone trapping using a speciesspecific-aggregation pheromone is commonly used to trap O. Rhinoceros in replanting sites (Hallet et al. 1995). However, not all population of O. Rhinoceros in the field were observed to be attracted by it. This suggests the possibility of a cryptic species complex occurrence in this insect. To investigate this notion, a thorough study utilizing molecular markers is necessary. An example of a powerful marker with proven capability for resolving such issues is the single-locus DNA microsatellite marker. Being codominant, multiallelic and highly polymorphic, microsatellites are a powerful and promising genetic marker, suitable for precise discrimination of closely related individuals (Smouse and Chevillon 1998). A previous study on the genetic variation of O. Rhinoceros had highlighted the necessity of further studying this pest species using single-locus microsatellite DNA markers as O. Rhinoceros were reported to exhibit possible occurrence in two groups (Manjeri et al. 2011). Therefore, with interest to further study the population genetic structure of O. Rhinoceros; this study was carried out to isolate sufficiently novel single-locus microsatellite markers for the insect. The isolation was carried out based on the 5′-anchored polymerase chain reaction (PCR) technique (Fisher et al. 1996)
