Research graph
References from Chromosome-level genome reference of the Caucasian dwarf goby Knipowitschia cf. caucasica, a new alien Gobiidae invading the River Rhine. Local targets link to admitted publications; unresolved targets remain external evidence.
The round goby genome provides insights into mechanisms that may facilitate biological invasions
10.1186/s12915-019-0731-8 · 2020 · External reference
MitoFinder: Efficient automated large‐scale extraction of mitogenomic data in target enrichment phylogenomics
10.1111/1755-0998.13160 · 2020 · External reference
FastQC: a quality control tool for high throughput sequence data
2010 · External reference
Interactive Exploration of Genomic Conservation
10.20380/gi2020.09 · 2020 · External reference
instaGRAAL: chromosome-level quality scaffolding of genomes using a proximity ligation-based scaffolder
10.1186/s13059-020-02041-z · 2020 · External reference
BBMap
2013 · External reference
Genomics comparisons of three chromosome-level mudskipper genome assemblies reveal molecular clues for water-to-land evolution and adaptation
10.1016/j.jare.2023.05.005 · 2024 · External reference
Trimmomatic: a flexible trimmer for Illumina sequence data
10.1093/bioinformatics/btu170 · 2014 · External reference
Non-native Gobiid species in the lower River Rhine (Germany): recent range extensions and densities
10.1111/j.1439-0426.2010.01662.x · 2011 · External reference
The Caucasian dwarf goby, a new alien Gobiidae spreading at the Lower Rhine, Germany
10.1111/jai.14196 · 2021 · External reference
rjchallis/assembly-stats 17.02
10.5281/zenodo.322347 · 2017 · External reference
BlobToolKit – Interactive Quality Assessment of Genome Assemblies
10.1534/g3.119.400908 · 2020 · External reference
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update
10.1093/nar/gkac247 · 2022 · External reference
Twelve years of SAMtools and BCFtools
10.1093/gigascience/giab008 · 2021 · External reference
Environmental DNA metabarcoding: Transforming how we survey animal and plant communities
10.1111/mec.14350 · External reference
Population dynamics and feeding ecology of the invasive Caucasian dwarf goby, textitKnipowitschia caucasica , in a freshwater habitat in Ukraine
10.1051/kmae/2020018 · 2020 · External reference
RepeatModeler2 for automated genomic discovery of transposable element families
10.1073/pnas.1921046117 · 2020 · External reference
BRAKER3: Fully Automated Genome Annotation Using RNA-Seq and Protein Evidence with GeneMark-ETP, AUGUSTUS and TSEBRA
10.1101/2023.06.10.544449 · 2023 · External reference
New chromosome-scale genome assembly for the Dwarf Goby, a River Rhine invader
10.24072/pci.genomics.100376 · 2024 · External reference
Invasion genomics uncover contrasting scenarios of genetic diversity in a widespread marine invader
10.1073/pnas.2116211118 · 2021 · External reference
InterProScan 5: genome-scale protein function classification
10.1093/bioinformatics/btu031 · 2014 · External reference
Assembly of long, error-prone reads using repeat graphs
10.1038/s41587-019-0072-8 · 2019 · External reference
HyPo: Super Fast Accurate Polisher for Long Read Genome Assemblies
10.1101/2019.12.19.882506 · 2019 · External reference
OrthoDB v11: annotation of orthologs in the widest sampling of organismal diversity
10.1093/nar/gkac998 · 2022 · External reference
BUSCO Update: Novel and Streamlined Workflows along with Broader and Deeper Phylogenetic Coverage for Scoring of Eukaryotic, Prokaryotic, and Viral Genomes
10.1093/molbev/msab199 · 2021 · External reference
KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies
10.1093/bioinformatics/btw663 · 2016 · External reference
Genomic data is missing for many highly invasive species, restricting our preparedness for escalating incursion rates
10.1038/s41598-022-17937-y · 2022 · External reference
hicstuff: Simple library/pipeline to generate and handle Hi-C data. Version v2.3.1
10.5281/zenodo.4066351 · 2020 · External reference
Quantitative monitoring of diverse fish communities on a large scale combining eDNA metabarcoding and qPCR
10.1111/1755-0998.13715 · 2023 · External reference
Fast and accurate long-read assembly with wtdbg2
10.1038/s41592-019-0669-3 · 2020 · External reference
DNA isolation from mammalian tissue
2001 · External reference
SeqKit: A Cross-Platform and Ultrafast Toolkit for FASTA/Q File Manipulation
10.1371/journal.pone.0163962 · 2016 · External reference
RepeatMasker Open-4.0
External reference
Rapid adaptive evolution in novel environments acts as an architect of population range expansion
10.1073/pnas.1712934114 · 2017 · External reference
Quantitative environmental DNA metabarcoding shows high potential as a novel approach to quantitatively assess fish community
10.1038/s41598-022-25274-3 · 2022 · External reference
MitoHiFi: a python pipeline for mitochondrial genome assembly from PacBio high fidelity reads
10.1186/s12859-023-05385-y · 2023 · External reference
Time- and memory-efficient genome assembly with Raven
10.1038/s43588-021-00073-4 · 2021 · External reference
Data from: De Novo Genome assembly of the Caucasian dwarf goby Knipowitschia cf. caucasica, a new alien Gobiidae invading the River Rhine
10.5281/zenodo.10784873 · 2024 · External reference
MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity
10.1093/nar/gkr1293 · 2012 · External reference
Detection of colinear blocks and synteny and evolutionary analyses based on utilization of MCScanX
10.1038/s41596-024-00968-2 · 2024 · External reference
TGS-GapCloser: A fast and accurate gap closer for large genomes with low coverage of error-prone long reads
10.1093/gigascience/giaa094 · 2020 · External reference
Rapid genetic adaptation to recently colonized environments is driven by genes underlying life history traits
10.1186/s12864-021-07553-x · 2021 · External reference
