5.9
CiteScore
5.9
Impact Factor

2019 Vol. 46, No. 7

Display Method:
Review
Gene redundancy and gene compensation: An updated view
Jinrong Peng
2019, 46(7): 329-333. doi: 10.1016/j.jgg.2019.07.001
Abstract (72) HTML PDF (5)
Abstract:
Gene knockdown approaches using antisense oligo nucleotides or analogs such as siRNAs and morpholinos have been widely adopted to study gene functions although the off-target issue has been always a concern in these studies. On the other hand, classic genetic analysis relies on the availability of loss-of-function or gain-of-function mutants. The fast development of genome editing technologies such as TALEN and CRISPR/Cas9 has greatly facilitated the generation of null mutants for the functional studies of target genes in a variety of organisms such as zebrafish. Surprisingly, an unexpected discrepancy was observed between morphant phenotype and mutant phenotype for many genes in zebrafish, i.e., while the morphant often displays an obvious phenotype, the corresponding null mutant appears relatively normal or only exhibits a mild phenotype due to gene compensation. Two recent reports have partially answered this intriguing question by showing that a pre-mature termination codon and homologous sequence are required to elicit the gene compensation and the histone modifying complex COMPASS is involved in activating the expression of the compensatory genes. Here, I summarize these exciting new progress and try to redefine the concept of genetic compensation and gene compensation.
Original research
Production of non-mosaic genome edited porcine embryos by injection of CRISPR/Cas9 into germinal vesicle oocytes
Xiaohu Su, Wei Chen, Qingqing Cai, Puping Liang, Yaosheng Chen, Peiqing Cong, Junjiu Huang
2019, 46(7): 335-342. doi: 10.1016/j.jgg.2019.07.002
Abstract (91) HTML PDF (1)
Abstract:
Genetically modified pigs represent a great promise for generating models of human diseases and producing new breeds. Generation of genetically edited pigs using somatic cell nuclear transfer (SCNT) or zygote cytoplasmic microinjection is a tedious process due to the low developmental rate or mosaicism of the founder (F0). Herein, we developed a method termed germinal vesicle oocyte gene editing (GVGE) to produce non-mosaic porcine embryos by editing maternal alleles during the GV to MⅡ transition. Injection of Cas9 mRNA and X-linked Dmd gene-specific gRNA into GV oocytes did not affect their developmental potential. The MⅡ oocytes edited during in vitro maturation (IVM) could develop into blastocysts after parthenogenetic activation (PA) or in vitro fertilization (IVF). Genotyping results indicated that the maternal gene X-linked Dmd could be efficiently edited during oocyte maturation. Up to 81.3% of the edited IVF embryos were non-mosaic Dmd gene mutant embryos. In conclusion, GVGE might be a valuable method for the generation of non-mosaic maternal allele edited F0 embryos in a short simple step.
Mapping quantitative trait loci using binned genotypes
Wen Yao, Guangwei Li, Yanru Cui, Yiming Yu, Qifa Zhang, Shizhong Xu
2019, 46(7): 343-352. doi: 10.1016/j.jgg.2019.06.005
Abstract (111) HTML PDF (3)
Abstract:
Precise mapping of quantitative trait loci (QTLs) is critical for assessing genetic effects and identifying candidate genes for quantitative traits. Interval and composite interval mappings have been the methods of choice for several decades, which have provided tools for identifying genomic regions harboring causal genes for quantitative traits. Historically, the concept was developed on the basis of sparse marker maps where genotypes of loci within intervals could not be observed. Currently, genomes of many organisms have been saturated with markers due to the new sequencing technologies. Genotyping by sequencing usually generates hundreds of thousands of single nucleotide polymorphisms (SNPs), which often include the causal polymorphisms. The concept of interval no longer exists, prompting the necessity of a norm change in QTL mapping technology to make use of the high-volume genomic data. Here we developed a statistical method and a software package to map QTLs by binning markers into haplotype blocks, called bins. The new method detects associations of bins with quantitative traits. It borrows the mixed model methodology with a polygenic control from genome-wide association studies (GWAS) and can handle all kinds of experimental populations under the linear mixed model (LMM) framework. We tested the method using both simulated data and data from populations of rice. The results showed that this method has higher power than the current methods. An R package named binQTL is available from GitHub.
Letter to the editor
Rare variants in novel and known genes associated with primary angle closure glaucoma based on whole exome sequencing of 549 probands
Wenmin Sun, Xueshan Xiao, Shiqiang Li, Jiamin Ouyang, Xueqing Li, Xiaoyun Jia, Xing Liu, Qingjiong Zhang
2019, 46(7): 353-357. doi: 10.1016/j.jgg.2019.06.004
Abstract (57) HTML PDF (4)
Abstract:
OsGCD1, a novel player in rice intine construction
Xiaorong Huang, Mengmeng Run, Meng-Xiang Sun
2019, 46(7): 359-362. doi: 10.1016/j.jgg.2019.06.003
Abstract (73) HTML PDF (4)
Abstract:
A modified high-efficiency thermal asymmetric interlaced PCR method for amplifying long unknown flanking sequences
Jiantao Tan, Qi Gong, Suize Yu, Yuke Hou, Dongchang Zeng, Qinlong Zhu, Yao-Guang Liu
2019, 46(7): 363-366. doi: 10.1016/j.jgg.2019.05.002
Abstract (220) HTML PDF (37)
Abstract: