- Correction to: High density marker panels, SNPs prioritizing and accuracy of genomic selection. [Published Erratum]
- BGBMC Genet 2018 Feb 15; 19(1):13
- BMC GENETICS (2018) 19:4 DOI: 10.1186/S12863-017-0595-2: The original version of this article , published on 5 January 2018, contained 3 formatting errors. In this Correction the affected parts of...
BMC GENETICS (2018) 19:4 DOI: 10.1186/S12863-017-0595-2: The original version of this article , published on 5 January 2018, contained 3 formatting errors. In this Correction the affected parts of the article are shown. The original article has been updated.
- Multiple Applications of a Transient CRISPR-Cas9 Coupled With Electroporation (TRACE) System in theCryptococcus neoformansSpecies Complex. [Journal Article]
- GGenetics 2018 Feb 14
- Cryptococcus neoformansis a fungal pathogen that claims hundreds of thousands of lives annually. Targeted genetic manipulation through biolistic transformation inC. neoformansdrov...
Cryptococcus neoformansis a fungal pathogen that claims hundreds of thousands of lives annually. Targeted genetic manipulation through biolistic transformation inC. neoformansdrove the investigation of this clinically important pathogen at the molecular level. Although costly and inefficient, biolistic transformation remains the major method for editingCryptococcusgenome as foreign DNAs introduced by other methods such as electroporation are predominantly not integrated into the genome. Although the majority of DNAs introduced by biolistic transformation are stably inherited, the transformation efficiency and the homologous integration rate (1~10%) are low. Here, we developed aTransientCRISPR-Cas9 coupled withElectroporation (TRACE) system for targeted genetic manipulations in theC. neoformansspecies complex.This method took advantage of efficient genome integration due to double strand breaks created at specific sites by the transient CRISPR-Cas9 system and the high transformation efficiency of electroporation. We demonstrated that TRACE can efficiently generate precise single gene deletion mutants using theADE2locus as an example. This system can also effectively delete multiple genes in a single transformation as evident by the successful generation of quadruplemfα1Δ2Δ3Δ4Δ mutants. In addition to generating gene deletion mutants, we complemented theade2Δ mutant by integrating a wild-typeADE2allele at the safe haven region (SH2) via homologous recombination using TRACE. Interestingly, introduced DNAs can be inserted at a designated genetic site without any homologous sequences, opening up numerous other applications. We expect that TRACE, an efficient, versatile, and cost-effective gene editing approach, will greatly accelerate research in this field.
- A Reassessment of Genes Modulating Aging in Mice Using Demographic Measurements of the Rate of Aging. [Journal Article]
- GGenetics 2018 Feb 14
- Many studies have reported genetic interventions having an effect on mouse lifespan, however it is crucial to discriminate between manipulations of aging and aging-independent causes of life extensio...
Many studies have reported genetic interventions having an effect on mouse lifespan, however it is crucial to discriminate between manipulations of aging and aging-independent causes of life extension. Here, we used the Gompertz equation to determine whether previously reported aging-related mouse genes statistically affect the demographic rate of aging. Of 30 genetic manipulations previously reported to extend lifespan, for only 2 we found evidence of retarding demographic aging:Cisd2andhMTH1Of 24 genetic manipulations reported to shorten lifespan and induce premature aging features, we found evidence of 5 accelerating demographic aging:Casp2,Fn1,IKK-β,JunDandStub1Overall, our reassessment found that only 15% of the genetic manipulations analysed significantly affected the demographic rate of aging as predicted, suggesting that a relatively small proportion of interventions affecting longevity do so by regulating the rate of aging. By contrast, genetic manipulations affecting longevity tend to impact on aging-independent mortality. Our meta-analysis of multiple mouse longevity studies also reveals substantial variation in the controls used across experiments, suggesting that a short lifespan of controls is a potential source of bias. Overall, the present work leads to a reassessment of genes affecting the aging process in mice with broad implications for our understanding of the genetics of mammalian aging and which genes may be more promising targets for drug discovery.
- Heritable contributions versus genetic architecture. [Journal Article]
- NRNat Rev Genet 2018 Feb 14; 19(3):185
- Using partitioned heritability methods to explore genetic architecture. [Journal Article]
- NRNat Rev Genet 2018 Feb 14; 19(3):185
- Genomics: Next regeneration sequencing for reference genomes. [Journal Article]
- NRNat Rev Genet 2018 Feb 14; 19(3):125
- Publisher Correction: BRD4 interacts with NIPBL and BRD4 is mutated in a Cornelia de Lange-like syndrome. [Published Erratum]
- NGenNat Genet 2018 Feb 12
- In the version of this article initially published, Wendy Bickmore and Madapura Pradeepa were incorrectly not indicated as corresponding authors. The error has been corrected in the HTML and PDF vers...
In the version of this article initially published, Wendy Bickmore and Madapura Pradeepa were incorrectly not indicated as corresponding authors. The error has been corrected in the HTML and PDF versions of the paper.
- Genetic Suppression of Basement Membrane Defects inCaenorhabditis elegansby Gain of Function in Extracellular Matrix and Cell-Matrix Attachment Genes. [Journal Article]
- GGenetics 2018 Feb 12
- Basement membranes are extracellular matrices essential for embryonic development in animals. Peroxidasins are extracellular peroxidases implicated in the unique sulfilimine crosslinks between type I...
Basement membranes are extracellular matrices essential for embryonic development in animals. Peroxidasins are extracellular peroxidases implicated in the unique sulfilimine crosslinks between type IV basement membrane collagens. Loss of function in theC. elegansperoxidasin PXN-2 results in fully penetrant embryonic or larval lethality. Using genetic suppressor screening we find that the requirement for PXN-2 in development can be bypassed by gain of function in multiple genes encoding other basement membrane components, or proteins implicated in cell-matrix attachment. We identify multiple alleles oflet-805,encoding the transmembrane protein Myotactin, which suppress phenotypes ofpxn-2null mutants and of other basement membrane mutants such as F-spondin/spon-1Theselet-805suppressor alleles cause missense alterations in two pairs of FNIII repeats in the extracellular domain; they act dominantly and have no detectable phenotypes alone, suggesting they cause gain of function. We also identify suppressor missense mutations affecting basement membrane components type IV collagen (emb-9, let-2) and perlecan (unc-52), as well as a mutation affecting spectraplakin (vab-10), a component of the epidermal cytoskeleton. These suppressor alleles do not bypass the developmental requirement for core structural proteins of the basement membrane such as laminin or type IV collagen. In conclusion, putative gain of function alterations in matrix proteins or in cell-matrix receptors can overcome the requirement for certain basement membrane proteins in embryonic development, revealing previously unknown plasticity in the genetic requirements for the extracellular matrix.
- Torso-Like Is a Component of the Hemolymph and Regulates the Insulin Signalling Pathway inDrosophila. [Journal Article]
- GGenetics 2018 Feb 13
- InDrosophilakey developmental transitions are governed by the steroid hormone ecdysone. A number of neuropeptide-activated signalling pathways control ecdysone production in response to environmental...
InDrosophilakey developmental transitions are governed by the steroid hormone ecdysone. A number of neuropeptide-activated signalling pathways control ecdysone production in response to environmental signals, including the insulin signalling pathway, which regulates ecdysone production in response to nutrition. Here, we find that the Membrane Attack Complex/Perforin-like protein Torso-like, best characterised for its role in activating the Torso receptor tyrosine kinase in early embryo patterning, also regulates the insulin signalling pathway inDrosophilaWe previously reported that the small body size and developmental delay phenotypes oftorso-likenull mutants resemble those observed when insulin signalling is reduced. Here we report that, in addition to growth defects,torso-likemutants also display metabolic and nutritional plasticity phenotypes characteristic of mutants with impaired insulin signalling. We further find that in the absence oftorso-likethe expression of insulin-like peptides is increased, as is their accumulation in the insulin-producing cells. Finally, we show that Torso-like is a component of the hemolymph and that it is required in the prothoracic gland to control developmental timing and body size. Taken together, our data suggest that the secretion of Torso-like from the prothoracic gland influences the activity of insulin signalling throughout the body inDrosophila.
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- Genetic diversity and ex situ conservation of Loropetalum subcordatum, an endangered species endemic to China. [Journal Article]
- BGBMC Genet 2018 Feb 13; 19(1):12
- CONCLUSIONS: Compared to previous SRAP-based studies of endangered plants, L. subcordatum had extremely low average gene diversity within populations and high genetic differentiation among populations. At present, the unique ex situ population has not been successful due to non-representative samples being taken, a smaller population size, and man-made changes in habitat. Potential strategies are suggested to improve the conservation of this species.