Tandem repeats lead to sequence assembly errors and impose multi-level challenges for genome and protein databases
The widespread occurrence of repetitive stretches of DNA in genomes of organisms across
the tree of life imposes fundamental challenges for sequencing, genome assembly, and …
the tree of life imposes fundamental challenges for sequencing, genome assembly, and …
An improved genome assembly uncovers prolific tandem repeats in Atlantic cod
Abstract Background The first Atlantic cod (Gadus morhua) genome assembly published in
2011 was one of the early genome assemblies exclusively based on high-throughput 454 …
2011 was one of the early genome assemblies exclusively based on high-throughput 454 …
Genome sequence of Jatropha curcas L., a non‐edible biodiesel plant, provides a resource to improve seed‐related traits
Jatropha curcas (physic nut), a non‐edible oilseed crop, represents one of the most
promising alternative energy sources due to its high seed oil content, rapid growth and …
promising alternative energy sources due to its high seed oil content, rapid growth and …
An accurate and efficient method for large-scale SSR genotyping and applications
L Li, Z Fang, J Zhou, H Chen, Z Hu, L Gao… - Nucleic acids …, 2017 - academic.oup.com
Accurate and efficient genotyping of simple sequence repeats (SSRs) constitutes the basis
of SSRs as an effective genetic marker with various applications. However, the existing …
of SSRs as an effective genetic marker with various applications. However, the existing …
Optimization of high molecular weight DNA extraction methods in shrimp for a long-read sequencing platform
P Angthong, T Uengwetwanit, W Pootakham… - PeerJ, 2020 - peerj.com
Marine organisms are important to global food security as they are the largest source of
animal proteins feeding mankind. Genomics-assisted aquaculture can increase yield while …
animal proteins feeding mankind. Genomics-assisted aquaculture can increase yield while …
Genomic architecture of haddock (Melanogrammus aeglefinus) shows expansions of innate immune genes and short tandem repeats
Background Increased availability of genome assemblies for non-model organisms has
resulted in invaluable biological and genomic insight into numerous vertebrates, including …
resulted in invaluable biological and genomic insight into numerous vertebrates, including …
Genomic characterization of the Atlantic cod sex-locus
A variety of sex determination mechanisms can be observed in evolutionary divergent
teleosts. Sex determination is genetic in Atlantic cod (Gadus morhua), however the genomic …
teleosts. Sex determination is genetic in Atlantic cod (Gadus morhua), however the genomic …
Facilitating population genomics of non-model organisms through optimized experimental design for reduced representation sequencing
Background Genome-wide data are invaluable to characterize differentiation and adaptation
of natural populations. Reduced representation sequencing (RRS) subsamples a genome …
of natural populations. Reduced representation sequencing (RRS) subsamples a genome …
PromethION Sequencing and Assembly of the Genome of Micropoecilia picta, a Fish with a Highly Degenerated Y Chromosome
D Charlesworth, C Graham, U Trivedi… - Genome Biology and …, 2021 - academic.oup.com
We here describe sequencing and assembly of both the autosomes and the sex
chromosome in Micropoecilia picta, the closest related species to the guppy, Poecilia …
chromosome in Micropoecilia picta, the closest related species to the guppy, Poecilia …
An improved version of the Atlantic cod genome and advancements in functional genomics: implications for the future of cod farming
Recent advancements within state-of-the-art genomic tools and the generation of the first
version of the Atlantic cod genome (Star et al., 2011) have proven to be valuable resources …
version of the Atlantic cod genome (Star et al., 2011) have proven to be valuable resources …