scholarly journals Variants in the Mitochondrial Genome Sequence of Rhyzopertha dominica (Fabricius) (Coleoptera: Bostrycidae)

Insects ◽  
2021 ◽  
Vol 12 (5) ◽  
pp. 387
Author(s):  
Lindsey C. Perkin ◽  
Timothy P. L. Smith ◽  
Brenda Oppert
Keyword(s):  
Mitochondrial Genome ◽  
Genome Sequence ◽  
Sequence Data ◽  
Laboratory Strain ◽  
Rhyzopertha Dominica ◽  
Whole Genome Sequence ◽  
Rrna Genes ◽  
Long Control Region ◽  
Trna Genes ◽  
Mitochondrial Genome Sequence

The lesser grain borer, Rhyzopertha dominica, is a coleopteran pest of stored grains and is mainly controlled by phosphine fumigation, but the increase in phosphine-resistant populations threatens efficacy. Some phosphine-resistant insects have reduced respiration, and thus studying the mitochondrial genome may provide additional information regarding resistance. Genomic DNA from an inbred laboratory strain of R. dominica was extracted and sequenced with both short (Illumina) and long (Pacific Biosciences) read technologies for whole genome sequence assembly and annotation. Short read sequences were assembled and annotated by open software to identify mitochondrial sequences, and the assembled sequence was manually annotated and verified by long read sequences. The mitochondrial genome sequence for R. dominica had a total length of 15,724 bp and encoded 22 trna genes, 2 rRNA genes, 13 protein coding genes (7 nad subunits, 3 cox, 2 atp, and 1 cytB), flanked by a long control region. We compared our predicted mitochondrial genome to that of another from a R. dominica strain from Jingziguan (China). While there was mostly agreement between the two assemblies, key differences will be further examined to determine if mutations in populations are related to insecticide control pressure, mainly that of phosphine. Differences in sequence data, assembly, and annotation also may result in different genome interpretations.

scholarly journals Complete Mitochondrial Genome Sequence of Bighorn Sheep

2018 ◽  
Vol 6 (23) ◽  
Author(s):  
Kimberly M. Davenport ◽  
Mingrui Duan ◽  
Samuel S. Hunter ◽  
Daniel D. New ◽  
Matthew W. Fagnan ◽  
...  
Keyword(s):  
Mitochondrial Genome ◽  
Genome Sequence ◽  
Complete Mitochondrial Genome ◽  
Bighorn Sheep ◽  
The United States ◽  
Rrna Genes ◽  
Trna Genes ◽  
Mitochondrial Genome Sequence ◽  
Content Type ◽  
Complete Mitochondrial Genome Sequence

ABSTRACT We report here the complete mitochondrial genome sequence of a Rocky Mountain bighorn sheep (Ovis canadensis) in the United States. The circular genome has a size of 16,466 bp and contains 13 protein-coding genes, 22 tRNA genes, and 2 rRNA genes.

scholarly journals Mitochondrial Genome Sequence of the Galápagos Endemic Land Snail Naesiotus nux

2016 ◽  
Vol 4 (1) ◽  
Author(s):  
Samuel S. Hunter ◽  
Matthew L. Settles ◽  
Daniel D. New ◽  
Christine E. Parent ◽  
Alida T. Gerritsen
Keyword(s):  
Mitochondrial Genome ◽  
Genome Sequence ◽  
Land Snail ◽  
Rrna Genes ◽  
Snail Species ◽  
Trna Genes ◽  
Protein Coding ◽  
Mitochondrial Genome Sequence ◽  
Protein Coding Genes ◽  
Circular Genome

We report herein the draft mitochondrial genome sequence of Naesiotus nux , a Galápagos endemic land snail species of the genus Naesiotus . The circular genome is 15 kb and encodes 13 protein-coding genes, 2 rRNA genes, and 21 tRNA genes.

scholarly journals The assembled Banana dihaploid mitochondrial genome is compact with a high number of gene copies

2022 ◽  
Author(s):  
Shruthy Priya Prakash ◽  
Vaidheki Chandrasekar ◽  
Selvi Subramanian ◽  
Rahamatthunnisha Ummar
Keyword(s):  
Mitochondrial Genome ◽  
Genome Sequence ◽  
Copy Number ◽  
Ribosomal Proteins ◽  
Tandem Repeats ◽  
Sequence Data ◽  
Crop Improvement ◽  
Whole Genome Sequence ◽  
Trna Genes ◽  
Mt Genome

Banana being a major food crop all around the world, attracts various research interests in crop improvement. In banana, complete genome sequences of Musa accuminata and Musa balbisiana are available. However, the mitochondrial genome is not sequenced or assembled. Mitochondrial (mt) genes play an important role in flower and seed development and in Cytoplasmic Male Sterility. Unraveling banana mt genome architecture will be a foundation for understanding inheritance of traits and their evolution. In this study, the complete banana mt genome is assembled from the whole genome sequence data of the Musa acuminata subsp. malaccensis DH-Pahang. The mt genome sequence acquired by this approach was 409574 bp and it contains, 54 genes coding for 25 respiratory complex proteins 15 ribosomal proteins, 12 tRNA genes and two ribosomal RNA gene. Except atpB, rps11 and rps19 other genes are in multiple copies. The copy number is 12 in tRNA genes. In addition, nearly 25% tandem repeats are also present in it. These mt proteins are identical to the mt proteins present in the other members of AA genome and share 98% sequence similarity with M. balbisiana. The C to U RNA editing is profoundly higher (87 vs 13%) in transcripts of M. balbisiana (BB) compared to M. accuminata (AA). The banana AA mitochondrial genome is tightly packed with 233 genes, with less rearrangements and just 5.3% chloroplast DNA in it. The maintenance of high copy number of functional mt genes suggest that they have a crucial role in the evolution of banana.

scholarly journals Complete Mitochondrial Genome Sequence of the Magpie-Lark (Grallina cyanoleuca)

2021 ◽  
Vol 10 (24) ◽  
Author(s):  
Subir Sarker ◽  
Babu Kanti Nath ◽  
Saranika Talukder ◽  
Shane R. Raidal
Keyword(s):  
Mitochondrial Genome ◽  
Genome Sequence ◽  
Complete Mitochondrial Genome ◽  
Passerine Bird ◽  
Rrna Genes ◽  
Trna Genes ◽  
Protein Coding ◽  
Mitochondrial Genome Sequence ◽  
Content Type ◽  
Complete Mitochondrial Genome Sequence

Here, we report the complete mitochondrial genome sequence of an Australian passerine bird, magpie-lark ( Grallina cyanoleuca ). The circular genome has a size of 16,933 bp and contains 13 protein-coding genes, 22 tRNA genes, and 2 rRNA genes. This study provides a reference mitochondrial genome of magpie-lark for further molecular studies.

scholarly journals Complete Mitochondrial Genome Sequence of the Gulf Coast Tick (Amblyomma maculatum)

2021 ◽  
Vol 10 (38) ◽  
Author(s):  
Amanda E. Brenner ◽  
Rahul Raghavan
Keyword(s):  
Mitochondrial Genome ◽  
Genome Sequence ◽  
Gulf Coast ◽  
Complete Mitochondrial Genome ◽  
Rrna Genes ◽  
Gene Arrangement ◽  
Trna Genes ◽  
Amblyomma Maculatum ◽  
Mitochondrial Genome Sequence ◽  
Content Type

The complete circularized mitochondrial genome sequence of Amblyomma maculatum is 14,803 bp long. It encodes 13 protein coding genes, 2 rRNA genes, 22 tRNA genes, 2 tick box motifs, and 2 control regions. The gene arrangement and content are consistent with those of previously reported Metastriata tick mitochondrial genomes.

scholarly journals Mitochondrial Genome Sequence of the Land Snail Oreohelix idahoensis

2019 ◽  
Vol 8 (33) ◽  
Author(s):  
T. Mason Linscott ◽  
Christine E. Parent
Keyword(s):  
Mitochondrial Genome ◽  
Pacific Northwest ◽  
Genome Sequence ◽  
Complete Mitochondrial Genome ◽  
The United States ◽  
Land Snail ◽  
Rrna Genes ◽  
Trna Genes ◽  
Mitochondrial Genome Sequence ◽  
Content Type

We announce the complete mitochondrial genome sequence of Oreohelix idahoensis, a threatened land snail endemic to the Pacific Northwest of the United States. The circular genome is 14.2 kb and contains 13 protein-coding genes, 2 rRNA genes, and 21 tRNA genes.

scholarly journals Full Mitochondrial Genome Sequence of the Sugar Beet Wireworm Limonius californicus (Coleoptera: Elateridae), a Common Agricultural Pest

2016 ◽  
Vol 4 (1) ◽  
Author(s):  
Alida T. Gerritsen ◽  
Daniel D. New ◽  
Barrie D. Robison ◽  
Arash Rashed ◽  
Paul Hohenlohe ◽  
...  
Keyword(s):  
Mitochondrial Genome ◽  
Genome Sequence ◽  
Rrna Genes ◽  
Trna Genes ◽  
Agricultural Pest ◽  
Larval Form ◽  
Protein Coding ◽  
Mitochondrial Genome Sequence ◽  
Protein Coding Genes ◽  
Click Beetle

We report here the full mitochondrial genome sequence of Limonius californicus , a species of click beetle that is an agricultural pest in its larval form. The circular genome is 16.5 kb and contains 13 protein-coding genes, 2 rRNA genes, and 22 tRNA genes.

scholarly journals Whole-Genome Sequence of a Pantoea sp. Strain Isolated from an Olive (Olea europaea L.) Knot

2019 ◽  
Vol 8 (42) ◽  
Author(s):  
Gabriela Vuletin Selak ◽  
Marina Raboteg ◽  
Audrey Dubost ◽  
Danis Abrouk ◽  
Katja Žanić ◽  
...  
Keyword(s):  
Genome Size ◽  
Genome Sequence ◽  
Dna Sequences ◽  
Sequence Data ◽  
Whole Genome Sequence ◽  
Trna Genes ◽  
Whole Genome ◽  
Ribosomal Operon ◽  
Adriatic Coast ◽  
Olive Trees

Here, we present the total genome sequence of Pantoea sp. strain paga, a plant-associated bacterium isolated from knots present on olive trees grown on the Adriatic Coast. The genome size of Pantoea sp. paga is 5.08 Mb, with a G+C content of 54%. The genome contains 4,776 predicted coding DNA sequences (CDSs), including 70 tRNA genes and 1 ribosomal operon. Obtained genome sequence data will provide insight on the physiology, ecology, and evolution of Pantoea spp.

scholarly journals The complete mitochondrial genome sequence of Oryctes rhinoceros (Coleoptera: Scarabaeidae) based on long-read nanopore sequencing

2020 ◽  
Author(s):  
Igor Filipović ◽  
James P. Hereward ◽  
Gordana Rašić ◽  
Gregor J. Devine ◽  
Michael J. Furlong ◽  
...  
Keyword(s):  
Mitochondrial Genome ◽  
Control Region ◽  
Complete Mitochondrial Genome ◽  
Rrna Genes ◽  
Invasive Pest ◽  
Long Control Region ◽  
Trna Genes ◽  
Oryctes Rhinoceros ◽  
Mitogenome Sequence ◽  
Long Read

AbstractThe 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.

scholarly journals Draft Genome Sequence of Bacillus pacificus KVCMST-8A-12, Isolated from a Marine Sediment Sample from the Kanyakumari Coast, India

2021 ◽  
Vol 10 (50) ◽  
Author(s):  
Asha Santhi ◽  
Venkatesh Subramanian ◽  
Krishnaveni Muthan
Keyword(s):  
Genome Sequence ◽  
Draft Genome ◽  
Gc Content ◽  
Draft Genome Sequence ◽  
Whole Genome Sequence ◽  
Rrna Genes ◽  
Trna Genes ◽  
Protein Coding ◽  
Content Type ◽  
Marine Sediment Sample

A DNase-producing Bacillus pacificus strain was isolated, and the whole-genome sequence is reported in this paper. The draft genome sequence of Bacillus pacificus KVCMST-8A-12 constitutes 2.4 Gbp of raw reads, with a GC content of 35.24%. In total, 5,661 protein-coding genes, 64 tRNA genes, and 4 rRNA genes were predicted.

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