Abstract:
BACKGROUND:Peromyscus are the most common mammalian species in North America and are widely used in both laboratory and field studies. The deer mouse, P. maniculatus and the old-field mouse, P. polionotus, are closely related and can generate viable and fertile hybrid offspring. The ability to generate hybrid offspring, coupled with developing genomic resources, enables researchers to conduct linkage analysis studies to identify genomic loci associated with specific traits. RESULTS:We used available genomic data to identify DNA polymorphisms between P. maniculatus and P. polionotus and used the polymorphic data to identify the range of genetic complexity that underlies physiological and behavioral differences between the species, including cholesterol metabolism and genes associated with autism. In addition, we used the polymorphic data to conduct a candidate gene linkage analysis for the Dominant spot trait and determined that Dominant spot is linked to a region of chromosome 20 that contains a strong candidate gene, Sox10. During the linkage analysis, we found that the spot size varied quantitively in affected Peromyscus based on genetic background. CONCLUSIONS:The expanding genomic resources for Peromyscus facilitate their use in linkage analysis studies, enabling the identification of loci associated with specific traits. More specifically, we have linked a coat color spotting phenotype, Dominant spot, with Sox10, a member the neural crest gene regulatory network, and that there are likely two genetic modifiers that interact with Dominant spot. These results establish Peromyscus as a model system for identifying new alleles of the neural crest gene regulatory network.
journal_name
BMC Genomicsjournal_title
BMC genomicsauthors
Shang Z,Horovitz DJ,McKenzie RH,Keisler JL,Felder MR,Davis SWdoi
10.1186/s12864-020-06969-1subject
Has Abstractpub_date
2020-09-11 00:00:00pages
622issue
1issn
1471-2164pii
10.1186/s12864-020-06969-1journal_volume
21pub_type
杂志文章相关文献
BMC GENOMICS文献大全abstract:BACKGROUND:Genetic influences underpinning complex traits are thought to involve multiple quantitative trait loci (QTLs) of small effect size. Detection of such QTL associations requires systematic screening of large numbers of DNA markers within large sample populations. Using pooled DNA on SNP microarrays to screen f...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-8-214
更新日期:2007-07-04 00:00:00
abstract:BACKGROUND:The diversity of placental architectures within and among mammalian orders is believed to be the result of adaptive evolution. Although, the genetic basis for these differences is unknown, some may arise from rapidly diverging and lineage-specific genes. Previously, we identified 91 novel lineage-specific tr...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-161
更新日期:2010-03-09 00:00:00
abstract:BACKGROUND:Progress in the fields of protein separation and identification technologies has accelerated research into biofluids proteomics for protein biomarker discovery. Urine has become an ideal and rich source of biomarkers in clinical proteomics. Here we performed a proteomic analysis of urine samples from pregnan...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-777
更新日期:2013-11-11 00:00:00
abstract:BACKGROUND:Brucella abortus is an intracellular zoonotic pathogen which causes undulant fever, endocarditis, arthritis and osteomyelitis in human and abortion and infertility in cattle. This bacterium is able to invade and replicate in host macrophage instead of getting removed by this defense mechanism. Therefore, und...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-426
更新日期:2013-06-27 00:00:00
abstract:BACKGROUND:Soybean seed weight is not only a yield component, but also a critical trait for various soybean food products such as sprouts, edamame, soy nuts, natto and miso. Linkage analysis and genome-wide association study (GWAS) are two complementary and powerful tools to connect phenotypic differences to the underl...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-3922-0
更新日期:2017-07-12 00:00:00
abstract:BACKGROUND:Serine/threonine kinase 33 (STK33) has been shown to be conserved across all major vertebrate classes including reptiles, mammals, amphibians and fish, suggesting its importance within vertebrates. It has been shown to phosphorylate vimentin and might play a role in spermatogenesis and organ ontogenesis. In ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-015-1769-9
更新日期:2015-07-22 00:00:00
abstract:BACKGROUND:Controlling and managing the breeding of bluefin tuna (Thunnus spp.) in captivity is an imperative step towards obtaining a sustainable supply of these fish in aquaculture production systems. Germ cell transplantation (GCT) is an innovative technology for the production of inter-species surrogates, by transp...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-016-2397-8
更新日期:2016-03-10 00:00:00
abstract:BACKGROUND:The origin and importance of exon-intron architecture comprises one of the remaining mysteries of gene evolution. Several studies have investigated the variations of intron length, GC content, ordinal position in a gene and divergence. However, there is little study about the structural variation of exons an...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-47
更新日期:2009-01-24 00:00:00
abstract:BACKGROUND:CRISPR is a microbial immune system likely to be involved in host-parasite coevolution. It functions using target sequences encoded by the bacterial genome, which interfere with invading nucleic acids using a homology-dependent system. The system also requires protospacer associated motifs (PAMs), short moti...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-663
更新日期:2014-08-08 00:00:00
abstract:BACKGROUND:Stress responses provide valuable models for deciphering the transcriptional networks controlling the adaptation of the cell to its environment. We analyzed the transcriptome response of yeast to toxic concentrations of selenite. We used gene network mapping tools to identify functional pathways and transcri...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-333
更新日期:2008-07-15 00:00:00
abstract:BACKGROUND:Deep-sea hydrothermal vents are unique chemoautotrophic ecosystems with harsh conditions. Alvinocaris longirostris is one of the dominant crustacean species inhabiting in these extreme environments. It is significant to clarify mechanisms in their adaptation to the vents. Lysine acetylation has been known to...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-4745-3
更新日期:2018-05-10 00:00:00
abstract:BACKGROUND:Galileo is one of three members of the P superfamily of DNA transposons. It was originally discovered in Drosophila buzzatii, in which three segregating chromosomal inversions were shown to have been generated by ectopic recombination between Galileo copies. Subsequently, Galileo was identified in six of 12 ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-792
更新日期:2014-09-13 00:00:00
abstract:BACKGROUND:Matricaria recutita (German chamomile) and Chamaemelum nobile (Roman chamomile) belong to the botanical family Asteraceae. These two herbs are not only morphologically distinguishable, but their secondary metabolites - especially the essential oils present in flowers are also different, especially the terpen...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-6579-z
更新日期:2020-02-18 00:00:00
abstract:BACKGROUND:We have reported that doxycycline-induced over-expression of wild type prion protein (PrP) in skeletal muscles of Tg(HQK) mice is sufficient to cause a primary myopathy with no signs of peripheral neuropathy. The preferential accumulation of the truncated PrP C1 fragment was closely correlated with these myo...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-201
更新日期:2009-04-28 00:00:00
abstract:BACKGROUND:Next-Generation Sequencing has revolutionized our approach to ancient DNA (aDNA) research, by providing complete genomic sequences of ancient individuals and extinct species. However, the recovery of genetic material from long-dead organisms is still complicated by a number of issues, including post-mortem D...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-178
更新日期:2012-05-10 00:00:00
abstract:BACKGROUND:Chinese bayberry (Myrica rubra Sieb. and Zucc.) is an important subtropical fruit crop and an ideal species for fruit quality research due to the rapid and substantial changes that occur during development and ripening, including changes in fruit color and taste. However, research at the molecular level is l...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-19
更新日期:2012-01-13 00:00:00
abstract:BACKGROUND:The Xklp2 (TPX2) proteins belong to the microtubule-associated (MAP) family of proteins. All members of the family contain the conserved TPX2 motif, which can interact with microtubules, regulate microtubule dynamics or assist with different microtubule functions, for example, maintenance of cell morphology ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-016-3303-0
更新日期:2016-11-24 00:00:00
abstract:BACKGROUND:The Polima (pol) system of cytoplasmic male sterility (CMS) and its fertility restoration gene Rfp have been used in hybrid breeding in Brassica napus, which has greatly improved the yield of rapeseed. However, the mechanism of the male sterility transition in pol CMS remains to be determined. RESULTS:To in...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-258
更新日期:2014-04-03 00:00:00
abstract:BACKGROUND:In contrast to unidirectional promoters wherein antisense transcription results in short transcripts which are rapidly degraded, bidirectional promoters produce mature transcripts in both sense and antisense orientation. To understand the molecular mechanism of how productive bidirectional transcription is r...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-4697-7
更新日期:2018-05-02 00:00:00
abstract:BACKGROUND:Baculoviruses are well known for their potential as biological agents for controlling agricultural and forest pests. They are also widely used as expression vectors in molecular cloning studies. The genome sequences of 48 baculoviruses are currently available in NCBI databases. As the number of sequenced vir...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-91
更新日期:2009-02-25 00:00:00
abstract:BACKGROUND:Palmitoylation is a reversible post-translational protein modification which involves the addition of palmitate to cysteine residues. Palmitoylation is catalysed by the DHHC family of palmitoyl-acyl transferases (PATs) and reversibility is conferred by palmitoyl-protein thioesterases (PPTs). Mutations in gen...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-841
更新日期:2014-10-02 00:00:00
abstract:BACKGROUND:White spot syndrome (WSS) is a viral disease that affects most of the commercially important shrimps and causes serious economic losses to the shrimp farming industry worldwide. However, little information is available in terms of the molecular mechanisms of the host-virus interaction. In this study, we used...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-8-120
更新日期:2007-05-16 00:00:00
abstract:BACKGROUND:The emergence of epithelia was the foundation of metazoan expansion. Epithelial tissues are a hallmark of metazoans deeply rooted in the evolution of their complex developmental morphogenesis processes. However, studies on the epithelial features of non-bilaterians are still sparse and it remains unclear whe...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-4715-9
更新日期:2018-05-24 00:00:00
abstract:BACKGROUND:Human leucocyte antigen (HLA) genes play an important role in determining the outcome of organ transplantation and are linked to many human diseases. Because of the diversity and polymorphisms of HLA loci, HLA typing at high resolution is challenging even with whole-genome sequencing data. RESULTS:We have d...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-16-S2-S7
更新日期:2015-01-01 00:00:00
abstract:BACKGROUND:The ballan wrasse (Labrus bergylta) belongs to a large teleost family containing more than 600 species showing several unique evolutionary traits such as lack of stomach and hermaphroditism. Agastric fish are found throughout the teleost phylogeny, in quite diverse and unrelated lineages, indicating stomach ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-4570-8
更新日期:2018-03-06 00:00:00
abstract:BACKGROUND:Dystonia1 (DYT1) dystonia is caused by a glutamic acid deletion (ΔE) mutation in the gene encoding Torsin A in humans (HTorA). To investigate the unknown molecular and cellular mechanisms underlying DYT1 dystonia, we performed an unbiased proteomic analysis. RESULTS:We found that the amount of proteins and ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-015-1518-0
更新日期:2015-04-23 00:00:00
abstract:BACKGROUND:We use an approach based on Factor Analysis to analyze datasets generated for transcriptional profiling. The method groups samples into biologically relevant categories, and enables the identification of genes and pathways most significantly associated to each phenotypic group, while allowing for the partici...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-6-109
更新日期:2005-08-17 00:00:00
abstract:BACKGROUND:Boar taint is observed in a high proportion of uncastrated male pigs and is characterized by an unpleasant odor/flavor in cooked meat, primarily caused by elevated levels of androstenone and skatole. Androstenone is a steroid produced in the testis in parallel with biosynthesis of other sex steroids like tes...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-362
更新日期:2011-07-13 00:00:00
abstract:BACKGROUND:The completion of the Plasmodium falciparum genome represents a milestone in malaria research. The genome sequence allows for the development of genome-wide approaches such as microarray and proteomics that will greatly facilitate our understanding of the parasite biology and accelerate new drug and vaccine ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-8-255
更新日期:2007-07-27 00:00:00
abstract:BACKGROUND:The overwhelming amount of network data in functional genomics is making its visualization cluttered with jumbling nodes and edges. Such cluttered network visualization, which is known as "hair-balls", is significantly hindering data interpretation and analysis of researchers. Effective navigation approaches...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-S7-S24
更新日期:2012-01-01 00:00:00