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How and where to look for tRNAs in Metazoan mitochondrial genomes, and what you might find when you get there
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1002/j.1460-2075.1990.tb07542.xopenalex-snapshot
A set of tRNAs that lack either the T psi C arm or the dihydrouridine arm: towards a minimal tRNA adaptor.
inferredcites →https://doi.org/10.1007/bf02109496openalex-snapshot
Nucleotide sequence of nine protein-coding genes and 22 tRNAs in the mitochondrial DNA of the sea starPisaster ochraceus
inferredcites →https://doi.org/10.1007/s00239-005-0102-7openalex-snapshot
The Mitochondrial Genome of Xiphinema americanum sensu stricto (Nematoda: Enoplea): Considerable Economization in the Length and Structural Features of Encoded Genes
inferredcites →https://doi.org/10.1016/0378-1119(89)90022-xopenalex-snapshot
Gene arrangement in sea star mitochondrial DNA demonstrates a major inversion event during echinoderm evolution
inferredcites →https://doi.org/10.1016/j.pt.2008.07.004openalex-snapshot
Apicomplexan mitochondrial metabolism: a story of gains, losses and retentions
inferredcites →https://doi.org/10.1016/j.tibs.2008.04.010openalex-snapshot
Recent advances in tRNA mitochondrial import
inferredcites →https://doi.org/10.1016/j.tig.2005.01.004openalex-snapshot
Transfer RNA gene recruitment in mitochondrial DNA
inferredcites →https://doi.org/10.1016/j.tig.2006.02.005openalex-snapshot
Differences between pair-wise and multi-sequence alignment methods affect vertebrate genome comparisons
inferredcites →https://doi.org/10.1016/j.ympev.2006.11.017openalex-snapshot
The effect of model choice on phylogenetic inference using mitochondrial sequence data: Lessons from the scorpions
inferredcites →https://doi.org/10.1016/j.ympev.2007.11.034openalex-snapshot
Evolution of mitochondrial gene orders in echinoderms
inferredcites →https://doi.org/10.1016/s0014-5793(02)02328-1openalex-snapshot
The minimal tRNA: unique structure of Ascaris suum mitochondrial tRNA Ser UCU having a short T arm and lacking the entire D arm
inferredcites →https://doi.org/10.1016/s0074-7696(08)62066-5openalex-snapshot
Animal Mitochondrial DNA: Structure and Evolution
inferredcites →https://doi.org/10.1016/s0076-6879(05)95019-2openalex-snapshot
Sequencing and Comparing Whole Mitochondrial Genomes of Animals
inferredcites →https://doi.org/10.1016/s0959-440x(02)00339-1openalex-snapshot
The accuracy of ribosomal RNA comparative structure models
inferredcites →https://doi.org/10.1017/s1355838200001047openalex-snapshot
Search for characteristic structural features of mammalian mitochondrial tRNAs
inferredcites →https://doi.org/10.1017/s1355838202022021openalex-snapshot
tRNomics: Analysis of tRNA genes from 50 genomes of Eukarya, Archaea, and Bacteria reveals anticodon-sparing strategies and domain-specific features
inferredcites →https://doi.org/10.1042/bj20061241openalex-snapshot
Intricacies and surprises of nuclear–mitochondrial co-evolution
inferredcites →https://doi.org/10.1073/pnas.84.5.1324openalex-snapshot
Bizarre tRNAs inferred from DNA sequences of mitochondrial genomes of nematode worms.
inferredcites →https://doi.org/10.1080/1521654031000119425openalex-snapshot
Diversity and Evolution of Mitochondrial RNA Editing Systems
inferredcites →https://doi.org/10.1080/15216540701218722openalex-snapshot
T‐armless tRNAs and elongated elongation factor Tu
inferredcites →https://doi.org/10.1093/bioinformatics/bth352openalex-snapshot
Automatic annotation of organellar genomes with DOGMA
inferredcites →https://doi.org/10.1093/bioinformatics/btl021openalex-snapshot
AMiGA: the arthropodan mitochondrial genomes accessible database
inferredcites →https://doi.org/10.1093/bioinformatics/btm017openalex-snapshot
PROMALS: towards accurate multiple sequence alignments of distantly related proteins
inferredcites →https://doi.org/10.1093/bioinformatics/btm573openalex-snapshot
ARWEN: a program to detect tRNA genes in metazoan mitochondrial nucleotide sequences
inferredcites →https://doi.org/10.1093/genetics/140.4.1353openalex-snapshot
Complete sequence and gene organization of the mitochondrial genome of the land snail Albinaria coerulea.
inferredcites →https://doi.org/10.1093/genetics/145.3.749openalex-snapshot
Evolution of Pulmonate Gastropod Mitochondrial Genomes: Comparisons of Gene Organizations of Euhadra, Cepaea and Albinaria and Implications of Unusual tRNA Secondary Structures
inferredcites →https://doi.org/10.1093/genetics/148.3.1091openalex-snapshot
The Mitochondrial Genome of the Sea Anemone Metridium senile (Cnidaria): Introns, a Paucity of tRNA Genes, and a Near-Standard Genetic Code
inferredcites →https://doi.org/10.1093/molbev/msh096openalex-snapshot
The Complete Mitochondrial Genome Sequence of the Spider Habronattus oregonensis Reveals Rearranged and Extremely Truncated tRNAs
inferredcites →https://doi.org/10.1093/molbev/msn051openalex-snapshot
Parallel Evolution of Truncated Transfer RNA Genes in Arachnid Mitochondrial Genomes
inferredcites →https://doi.org/10.1093/nar/25.5.955openalex-snapshot
tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence
inferredcites →https://doi.org/10.1093/nar/gkg077openalex-snapshot
OGRe: a relational database for comparative analysis of mitochondrial genomes
inferredcites →https://doi.org/10.1093/nar/gkg080openalex-snapshot
PLMItRNA, a database on the heterogeneous genetic origin of mitochondrial tRNA genes and tRNAs in photosynthetic eukaryotes
inferredcites →https://doi.org/10.1093/nar/gkm160openalex-snapshot
RNAmmer: consistent and rapid annotation of ribosomal RNA genes
inferredcites →https://doi.org/10.1093/nar/gkn692openalex-snapshot
tRNADB-CE: tRNA gene database curated manually by experts
inferredcites →https://doi.org/10.1093/nar/gkn721openalex-snapshot
NCBI Reference Sequences: current status, policy and new initiatives
inferredcites →https://doi.org/10.1093/nar/gkn772openalex-snapshot
tRNAdb 2009: compilation of tRNA sequences and tRNA genes
inferredcites →https://doi.org/10.1093/nar/gkn879openalex-snapshot
The Ribosomal Database Project: improved alignments and new tools for rRNA analysis
inferredcites →https://doi.org/10.1093/nar/gkq1007openalex-snapshot
tRNADB-CE 2011: tRNA gene database curated manually by experts
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a004055openalex-snapshot
The Complete Sequence of the Mitochondrial Genome of the Honeybee Ectoparasite Mite Varroa destructor (Acari: Mesostigmata)
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a026360openalex-snapshot
The Complete Mitochondrial DNA Sequence of the Horseshoe Crab Limulus polyphemus
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a026390openalex-snapshot
Mitochondrial Sequence Evolution in Spiders: Intraspecific Variation in tRNAs Lacking the TΨC Arm
inferredcites →https://doi.org/10.1099/ijs.0.63446-0openalex-snapshot
Comparative study of overlapping genes in bacteria, with special reference to Rickettsia prowazekii and Rickettsia conorii
inferredcites →https://doi.org/10.1101/gr.2433104openalex-snapshot
Properties of overlapping genes are conserved across microbial genomes
inferredcites →https://doi.org/10.1126/science.319.5870.1598openalex-snapshot
Proposal to 'Wikify' GenBank Meets Stiff Resistance
inferredcites →https://doi.org/10.1128/aem.03006-05openalex-snapshot
Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB
inferredcites →https://doi.org/10.1146/annurev.micro.60.080805.142300openalex-snapshot
Streamlining and Simplification of Microbial Genome Architecture
inferredcites →https://doi.org/10.1186/1471-2105-3-2openalex-snapshot
The Comparative RNA Web (CRW) Site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs
inferredcites →https://doi.org/10.1186/1471-2148-4-25openalex-snapshot
Organization of the mitochondrial genomes of whiteflies, aphids, and psyllids (Hemiptera, Sternorrhyncha)
inferredcites →https://doi.org/10.1186/1471-2148-7-123openalex-snapshot
Comparative mitochondrial genomics of snakes: extraordinary substitution rate dynamics and functionality of the duplicate control region
inferredcites →https://doi.org/10.1186/1471-2164-7-241openalex-snapshot
The complete mitochondrial genome of the common sea slater, Ligia oceanica (Crustacea, Isopoda) bears a novel gene order and unusual control region features
inferredcites →https://doi.org/10.1186/1471-2164-9-33openalex-snapshot
The mitochondrial genome of the hexactinellid sponge Aphrocallistes vastus: Evidence for programmed translational frameshifting
inferredcites →https://doi.org/10.1186/1471-2164-9-532openalex-snapshot
The complete mitochondrial genome of the sexual oribatid mite Steganacarus magnus: genome rearrangements and loss of tRNAs
inferredcites →https://doi.org/10.1261/rna.2193703openalex-snapshot
A novel method for finding tRNA genes
inferredcites →https://doi.org/10.1261/rna.588407openalex-snapshot
Mamit-tRNA, a database of mammalian mitochondrial tRNA primary and secondary structures
inferredcites →https://doi.org/10.2751/jcac.7.116openalex-snapshot
[Special Issue: Fact Databases and Freewares] tRNAfinder: A Software System To Find All tRNA Genes in the DNA Sequence Based on the Cloverleaf Secondary Structure
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1016/j.ympev.2010.12.016openalex-snapshot
The mitochondrial genome of Colossendeis megalonyx supports a basal position of Colossendeidae within the Pycnogonida
inferred← citeshttps://doi.org/10.1017/s0031182015000384openalex-snapshot
First comparative insight into the architecture ofCOImitochondrial minicircle molecules of dicyemids reveals marked inter-species variation
inferred← citeshttps://doi.org/10.1038/s41598-017-01608-4openalex-snapshot
The mitochondrial genomes of the acoelomorph worms Paratomella rubra, Isodiametra pulchra and Archaphanostoma ylvae
inferred← citeshttps://doi.org/10.1080/15476286.2015.1090078openalex-snapshot
Large gene overlaps and tRNA processing in the compact mitochondrial genome of the crustaceanArmadillidium vulgare
inferred← citeshttps://doi.org/10.1111/jzs.12415openalex-snapshot
On the shoulder of giants: Mitogenome recovery from non‐targeted genome projects for phylogenetic inference and molecular evolution studies
inferred← citeshttps://doi.org/10.1186/1471-2164-13-114openalex-snapshot
The complete mitogenome of Cylindrus obtusus (Helicidae, Ariantinae) using Illumina next generation sequencing
inferred← citeshttps://doi.org/10.1371/journal.pone.0098558openalex-snapshot
The Complete Mitochondrial Genome of Meloidogyne graminicola (Tylenchina): A Unique Gene Arrangement and Its Phylogenetic Implications
inferred← citeshttps://doi.org/10.1371/journal.pone.0253724openalex-snapshot
The mitochondrial genome of the semi-slug Omalonyx unguis (Gastropoda: Succineidae) and the phylogenetic relationships within Stylommatophora
inferred← citeshttps://doi.org/10.5772/intechopen.75555openalex-snapshot
True Mitochondrial tRNA Punctuation and Initiation Using Overlapping Stop and Start Codons at Specific and Conserved Positions
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