ArticleBMC evolutionary biology2014
Integrated shotgun sequencing and bioinformatics pipeline allows ultra-fast mitogenome recovery and confirms substantial gene rearrangements in Australian freshwater crayfishes.
Article in BMC evolutionary biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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26 citing papers in PubMed.
- A Prickly Problem: Genome Skimming Reveals Varying Levels of Phylogenetic Diversity in the Freshwater CrayfishEcology and evolution · 2026Article
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- Chromosome-length genome assembly and linkage map of a critically endangered Australian bird: the helmeted honeyeater.GigaScience · 2022Article
- Mitogenome and phylogenetic analyses support rapid diversification among species groups of small-eared shrews genusZoological research · 2021Article
- Mangrove tree (Avicennia marina): insight into chloroplast genome evolutionary divergence and its comparison with related species from family Acanthaceae.Scientific reports · 2021Article
- Comparative Characterization of Mitogenomes From Five Orders of Cestodes (Eucestoda: Tapeworms).Frontiers in genetics · 2021Article
- Culicidae evolutionary history focusing on the Culicinae subfamily based on mitochondrial phylogenomics.Scientific reports · 2020Article
- Mesozoic mitogenome rearrangements and freshwater mussel (Bivalvia: Unionoidea) macroevolution.Heredity · 2020Article
- Variability of mitochondrial ORFans hints at possible differences in the system of doubly uniparental inheritance of mitochondria among families of freshwater mussels (Bivalvia: Unionida).BMC evolutionary biology · 2019Article
- The complete mitochondrial genome of a grasshopper endemic to the Qinghai-Tibet plateau,Mitochondrial DNA. Part B, Resources · 2019Article
- Comparative mitogenomics of the Decapoda reveals evolutionary heterogeneity in architecture and composition.Scientific reports · 2019Article
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- Mind the gap! The mitochondrial control region and its power as a phylogenetic marker in echinoids.BMC evolutionary biology · 2018Article
- A new strategy to infer circularity applied to four new complete frog mitogenomes.Ecology and evolution · 2018Article
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- Finding Nemo: hybrid assembly with Oxford Nanopore and Illumina reads greatly improves the clownfish (Amphiprion ocellaris) genome assembly.GigaScience · 2018Article
- The complete mitochondrial genome of the snakeskin gourami,Mitochondrial DNA. Part B, Resources · 2017Article
- Mitochondrial genomes and phylogenetic relationships ofMitochondrial DNA. Part B, Resources · 2017Article
- Article
- Complete mitochondrial genomes from two species of Chinese freshwater crabs of the genusZooKeys · 2017Article
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3 authors.
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Abstract
backgroundAlthough it is possible to recover the complete mitogenome directly from shotgun sequencing data, currently reported methods and pipelines are still relatively time consuming and costly. Using a sample of the Australian freshwater crayfish Engaeus lengana, we demonstrate that it is possible to achieve three-day turnaround time (four hours hands-on time) from tissue sample to NCBI-ready submission file through the integration of MiSeq sequencing platform, Nextera sample preparation protocol, MITObim assembly algorithm and MITOS annotation pipeline.
resultsThe complete mitochondrial genome of the parastacid freshwater crayfish, Engaeus lengana, was recovered by modest shotgun sequencing (1.2 giga bases) using the Illumina MiSeq benchtop sequencing platform. Genome assembly using the MITObim mitogenome assembler recovered the mitochondrial genome as a single contig with a 97-fold mean coverage (min. = 17; max. = 138). The mitogenome consists of 15,934 base pairs and contains the typical 37 mitochondrial genes and a non-coding AT-rich region. The genome arrangement is similar to the only other published parastacid mitogenome from the Australian genus Cherax.
conclusionsWe infer that the gene order arrangement found in Cherax destructor is common to Australian crayfish and may be a derived feature of the southern hemisphere family Parastacidae. Further, we report to our knowledge, the simplest and fastest protocol for the recovery and assembly of complete mitochondrial genomes using the MiSeq benchtop sequencer.
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