Short Communication An AFLP-based approach for the identification of sex-linked markers in blunt snout bream, Megalobrama amblycephala (Cyprinidae)

Rao, Harsih; Deng, Jiaheng; Wang, W.M.; Gao, Zhihui

doi:10.4238/2012.april.19.7

Cited by 14 publications

(6 citation statements)

References 17 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Due to its high economic value, the total production of M. amblycephalais is rapidly growing [ 3 ]. In recent years, molecular techniques, deep sequencing for transcriptome and microRNAs analysis were initially used for the development of molecular markers associated with several important economic traits, such as body shape, hypoxia resistance and disease resistance [ 4 , 5 , 6 ].…”

Section: Introductionmentioning

confidence: 99%

A Comprehensive Analysis of Codon Usage Patterns in Blunt Snout Bream (Megalobrama amblycephala) Based on RNA-Seq Data

Duan

Guo

et al. 2015

IJMS

View full text Add to dashboard Cite

Blunt snout bream (Megalobrama amblycephala) is an important fish species for its delicacy and high economic value in China. Codon usage analysis could be helpful to understand its codon biology, mRNA translation and vertebrate evolution. Based on RNA-Seq data for M. amblycephala, high-frequency codons (CUG, AGA, GUG, CAG and GAG), as well as low-frequency ones (NUA and NCG codons) were identified. A total of 724 high-frequency codon pairs were observed. Meanwhile, 14 preferred and 199 avoided neighboring codon pairs were also identified, but bias was almost not shown with one or more intervening codons inserted between the same pairs. Codon usage bias in the regions close to start and stop codons indicated apparent heterogeneity, which even occurs in the flanking nucleotide sequence. Codon usage bias (RSCU and SCUO) was related to GC3 (GC content of 3rd nucleotide in codon) bias. Six GO (Gene ontology) categories and the number of methylation targets were influenced by GC3. Codon usage patterns comparison among 23 vertebrates showed species specificities by using GC contents, codon usage and codon context analysis. This work provided new insights into fish biology and new information for breeding projects.

show abstract

Section: Introductionmentioning

confidence: 99%

A Comprehensive Analysis of Codon Usage Patterns in Blunt Snout Bream (Megalobrama amblycephala) Based on RNA-Seq Data

Duan

Guo

et al. 2015

IJMS

View full text Add to dashboard Cite

show abstract

“…At present, molecular techniques are still not widely used in the breeding of M. amblycephala due to a lack of genetic and genomic information. In recent years, several traits of M. amblycephala , including body shape, hypoxia resistance and disease resistance, have been studied through development of molecular markers [ 4 - 6 ]. Although it is an important economic trait, the growth rate of M. amblycephala has not been well defined by molecular markers or control mechanisms.…”

Section: Introductionmentioning

confidence: 99%

Identification and characterization of microRNAs involved in growth of blunt snout bream (Megalobrama amblycephala) by Solexa sequencing

Gao

Zhao

et al. 2013

BMC Genomics

View full text Add to dashboard Cite

BackgroundBlunt snout bream (Megalobrama amblycephala) is an economically important fish species in the Chinese freshwater polyculture system for its delicacy and high economic value. MicroRNAs (miRNAs) play important roles in regulation of almost all biological processes in eukaryotes. Although previous studies have identified thousands of miRNAs from many species, little information is known for miRNAs of M. amblycephala. To investigate functions of miRNAs associated with growth of M. amblycephala, we adopted the Solexa sequencing technology to sequence two small RNA libraries prepared from four growth related tissues (brain, pituitary, liver and muscle) of M. amblycephala using individuals with relatively high and low growth rates.ResultsIn this study, we have identified 347 conserved miRNAs (belonging to 123 families) and 22 novel miRNAs in M. amblycephala. Moreover, we observed sequence variants and seed edits of the miRNAs. Of the 5,166 single nucleotide substitutions observed in two libraries, the most abundant were G-to-U (15.9%), followed by U-to-C (12.1%), G-to-A (11.2%), and A to G (11.2%). Subsequently, we compared the expression patterns of miRNAs in the two libraries (big-size group with high growth rate versus small-size group with low growth rate). Results indicated that 27 miRNAs displayed significant differential expressions between the two libraries (p < 0.05). Of these, 16 were significantly up-regulated and 11 were significantly down-regulated in the big-size group compared to the small-size group. Furthermore, stem-loop RT-PCR was applied to validate and profile the expression of the differentially expressed miRNAs in ten tissues, and the result revealed that the conserved miRNAs expressed at higher levels than the novel miRNAs, especially in brain, liver and muscle. Also, targets prediction of differentially expressed miRNAs and KEGG pathway analysis suggested that differentially expressed miRNAs are involved in growth and metabolism, signal transduction, cell cycle, neural development and functions.ConclusionsThe present study provides the first large-scale characterization of miRNAs in M. amblycephala and miRNA profile related to different growth performances. The discovery of miRNA resource from this study is expected to contribute to a better understanding of the miRNAs roles playing in regulating the growth biological processes and the study of miRNA function and phenotype-associated miRNA identification in fish.

show abstract

“…DNA markers for sex have been identified in many species and can allow reliable, quick identification of sex at early stages of development. Male-or female-specific DNA markers have been identified in many important aquaculture fishes, including African catfish, Clarias gariepinus (Kovacs et al 2000); Asian arowana, Scleropages formosus, Osteoglossidae (Yue et al 2003); blunt snout bream, Megalobrama amblycephala (Rao et al 2012); common carp, Cyprinus carpio (Chen et al 2009); half-smooth tongue sole, Cynoglossus semilaevis (Chen et al 2007(Chen et al , 2008; medaka, Oryzias latipes (Matsuda et al 1997;Matsuda et al 2002); rainbow trout, Oncorhynchus mykiss (Felip et al 2005); rock bream, Oplegnathus fasciatus (Xu et al 2013); salmonids (Devlin et al 2001); yellow catfish, Pelteobagrus fulvidraco (Dan et al 2013;Liu et al 2013b); turbot, Scophthalmus maximus (Vinas et al 2012);matrinchã, Brycon amazonicus (da Silva et al 2012); and loach, Paramisgurnus dabryanus (Xia et al 2011).…”

Section: Marker-assisted Selectionmentioning

confidence: 99%

A Review of Genetic Advances Related to Sex Control and Manipulation in Tilapia

Chen

Fan

Tan

et al. 2017

J World Aquaculture Soc

View full text Add to dashboard Cite

Tilapias are the second most farmed fish worldwide. Production of tilapia has quadrupled over the past decade because of the ease with which they are cultured, their marketability, and the stability of market prices. Continued increases in tilapia production must be based on sustainable practices. Excessive reproduction during growout has been a major problem in tilapia aquaculture and has been addressed by culturing monosex (all‐male) populations. The best way to obtain monosex populations is through control of sexual development. To produce genetically male tilapia, researchers can arrange matings using sex‐specific DNA markers, create hybrids between tilapia strains with different sex determination loci, or they can alter the innate genetic traits of a species. Improved varieties have, in many cases, facilitated the development of the aquaculture industry by lowering costs and increasing both quality and yield. In this review, we focus on the application of marker‐assisted breeding, cross‐breeding, and genetic modification technologies to control sexual development in tilapia.

show abstract

Short Communication An AFLP-based approach for the identification of sex-linked markers in blunt snout bream, Megalobrama amblycephala (Cyprinidae)

Cited by 14 publications

References 17 publications

A Comprehensive Analysis of Codon Usage Patterns in Blunt Snout Bream (Megalobrama amblycephala) Based on RNA-Seq Data

A Comprehensive Analysis of Codon Usage Patterns in Blunt Snout Bream (Megalobrama amblycephala) Based on RNA-Seq Data

Identification and characterization of microRNAs involved in growth of blunt snout bream (Megalobrama amblycephala) by Solexa sequencing

A Review of Genetic Advances Related to Sex Control and Manipulation in Tilapia

Contact Info

Product

Resources

About