Biology subjects

Guzman, V.

Publications and source records attributed to Guzman, V..

3 recordsLinked to original sources

bioRxiv2021

Redundant mechanisms driven independently by RUNX1 and GATA2 for hematopoietic development

RUNX1 is essential for the generation of hematopoietic stem cells (HSCs). Runx1 null mouse embryos lack definitive hematopoiesis and die in mid-gestation. However, even though zebrafish embryos with a runx1 W84X mutation have defects in early definitive hematopoiesis, some runx1W84X/W84X embryos can develop to fertile adults with blood cells of multi-lineages, raising the possibility that HSCs can emerge without RUNX1. Here, using three new zebrafish runx1-/- lines we uncovered the compensatory mechanism for runx1-independent hematopoiesis. We show that, in the absence of a functional runx1, a cd41-GFP+ population of hematopoietic precursors still emerge from the hemogenic endothelium and can colonize the hematopoietic tissues of the mutant embryos. Single-cell RNA sequencing of the cd41-GFP+ cells identified a set of runx1-/--specific signature genes during hematopoiesis. Significantly, gata2b, which normally acts upstream of runx1 for the generation of HSCs, was increased in the cd41-GFP+ cells in runx1- /- embryos. Interestingly, genetic inactivation of both gata2b and its paralog, gata2a, did not affect hematopoiesis. However, knocking out runx1 and any three of the four alleles of gata2a and gata2b abolished definitive hematopoiesis. Gata2 expression was also upregulated in hematopoietic cells in Runx1-/- mice, suggesting the compensatory mechanism is conserved. Our findings indicate that RUNX1 and GATA2 serve redundant roles for HSC production, acting as each others safeguard. Key pointsO_LIExistence of RUNX1-independent mechanisms for the generation of HSCs and the development of functional definitive hematopoietic cells C_LIO_LIGATA2 and RUNX1 functionally complement each other for their respective roles during hematopoiesis C_LI

genetics↗

bioRxiv2019

White matter regions with low microstructure in young adults are associated with white matter hyperintensities in late life

BackgroundWhite matter hyperintensities (WMH) are areas of increased signal observed on T2-weighted magnetic resonance imaging (MRI) that reflect macrostructural white matter damage frequently observed in aging. The extent to which diminished microstructure precedes or results from white matter damage is unknown. The aim of this study was to evaluate the hypothesis that white matter areas that show normatively lower microstructure are most susceptible to develop WMH. MethodsFive hundred fifty-seven older adults (age: 73.9{+/-}5.7yrs) underwent diffusion weighted imaging (DWI) and T2-weighted magnetic resonance imaging (MRI). Diffusion weighted imaging scans were processed into parametric maps of fractional anisotropy (FA) and T2-weighted MRI scans were segmented into WMH. All images were spatially normalized to standard space. A FA template was created to represent normative values from a separate, independent sample of young, healthy adults (N=49, age: 25.8{+/-}2.8yrs) and a WMH frequency template was created from the segmented WMH in the older adults. We compared FA values between areas defined as WMH with those defined as normal appearing white matter (NAWM) in the older participants. White matter hyperintensity frequency was binned (0-5%, 5-10%, 10-15%, 15-20%, >20%) and we determined whether WMH frequency bins were different by normative FA values defined in the younger group. ResultsFractional anisotropy values were lower (p<0.001) in WMH regions compared with NAWM regions in the older sample. Areas with higher WMH frequency in older adults had lower FA values in younger adults (5-10%>10-15%>15-20%; p<0.001). DiscussionLow FA values are observed in frank WMH, but FA is also normatively low in regions with high WMH frequency prior to damage. Regions with normatively lower microstructure are more susceptible to future damage from factors such as chronic hypoperfusion or pathology.

neuroscience↗

bioRxiv2017

Biocuration as an undergraduate training experience: Improving the annotation of the insect vector of Citrus greening disease

The Asian citrus psyllid (Diaphorina citri Kuwayama) is the insect vector of the bacterium Candidatus Liberibacter asiaticus (CLas), the pathogen associated with citrus Huanglongbing (HLB, citrus greening). HLB threatens citrus production worldwide. Suppression or reduction of the insect vector using chemical insecticides has been the primary method to inhibit the spread of citrus greening disease. Accurate structural and functional annotation of the Asian citrus psyllid genome, as well as a clear understanding of the interactions between the insect and CLas, are required for development of new molecular-based HLB control methods. A draft assembly of the D. citri genome has been generated and annotated with automated pipelines. However, knowledge transfer from well-curated reference genomes such as that of Drosophila melanogaster to newly sequenced ones is challenging due to the complexity and diversity of insect genomes. To identify and improve gene models as potential targets for pest control, we manually curated several gene families with a focus on genes that have key functional roles in D. citri biology and CLas interactions. This community effort produced 530 manually curated gene models across developmental, physiological, RNAi regulatory, and immunity-related pathways. As previously shown in the pea aphid, RNAi machinery genes putatively involved in the microRNA pathway have been specifically duplicated. A comprehensive transcriptome enabled us to identify a number of gene families that are either missing or misassembled in the draft genome. In order to develop biocuration as a training experience, we included undergraduate and graduate students from multiple institutions, as well as experienced annotators from the insect genomics research community. The resulting gene set (OGS v1.0) combines both automatically predicted and manually curated gene models. All data are available on https://citrusgreening.org/.

genomics↗