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https://www.readbyqxmd.com/read/29351292/allocation-of-distinct-organ-fates-from-a-precursor-field-requires-a-shift-in-expression-and-function-of-gene-regulatory-networks
#1
Sneha Palliyil, Jinjin Zhu, Luke R Baker, Sarah D Neuman, Arash Bashirullah, Justin P Kumar
A common occurrence in metazoan development is the rise of multiple tissues/organs from a single uniform precursor field. One example is the anterior forebrain of vertebrates, which produces the eyes, hypothalamus, diencephalon, and telencephalon. Another instance is the Drosophila wing disc, which generates the adult wing blade, the hinge, and the thorax. Gene regulatory networks (GRNs) that are comprised of signaling pathways and batteries of transcription factors parcel the undifferentiated field into discrete territories...
January 19, 2018: PLoS Genetics
https://www.readbyqxmd.com/read/29351213/cyclin-b3-deficiency-impairs-germline-stem-cell-maintenance-and-its-overexpression-delays-cystoblast-differentiation-in-drosophila-ovary
#2
Dongsheng Chen, Lijuan Zhou, Fuling Sun, Mingzhong Sun, Xiaoqian Tao
It is well known that cyclinB3 (cycB3) plays a key role in the control of cell cycle progression. However, whether cycB3 is involved in stem cell fate determination remains unknown. The Drosophila ovary provides an exclusive model for studying the intrinsic and extrinsic factors that modulate the fate of germline stem cells (GSCs). Here, using this model, we show that DrosophilacycB3 plays a new role in controlling the fate of germline stem cells (GSC). Results from cycB3 genetic analyses demonstrate that cycB3 is intrinsically required for GSC maintenance...
January 19, 2018: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29345010/genetic-variation-in-the-shape-of-cold-survival-curves-in-a-single-fly-population-suggests-potential-for-selection-from-climate-variability
#3
Nicholas M Teets, Daniel A Hahn
Temperature variation is one of the primary challenges facing ectotherms, and the ability to tolerate a range of thermal environments is critical for setting current and future species distributions. Low temperature is particularly challenging for ectotherms because winter conditions have strong latitudinal and temporal variation. Lower lethal temperature (LLT) is a common metric of cold tolerance used in studies of local adaptation and plasticity. Comparisons of LLT across groups typically assume parallel S-shaped survival curves, but genetic variation in the shape of survival vs...
January 18, 2018: Journal of Evolutionary Biology
https://www.readbyqxmd.com/read/29344415/rhizoma-coptidis-and-berberine-as-a-natural-drug-to-combat-aging-and-aging-related-diseases-via-anti-oxidation-and-ampk-activation
#4
REVIEW
Zhifang Xu, Wei Feng, Qian Shen, Nannan Yu, Kun Yu, Shenjun Wang, Zhigang Chen, Seiji Shioda, Yi Guo
Aging is the greatest risk factor for human diseases, as it results in cellular growth arrest, impaired tissue function and metabolism, ultimately impacting life span. Two different mechanisms are thought to be primary causes of aging. One is cumulative DNA damage induced by a perpetuating cycle of oxidative stress; the other is nutrient-sensing adenosine monophosphate-activated protein kinase (AMPK) and rapamycin (mTOR)/ ribosomal protein S6 (rpS6) pathways. As the main bioactive component of natural Chinese medicine rhizoma coptidis (RC), berberine has recently been reported to expand life span in Drosophila melanogaster, and attenuate premature cellular senescence...
December 2017: Aging and Disease
https://www.readbyqxmd.com/read/29343637/tyrosine-phosphorylation-and-proteolytic-cleavage-of-notch-are-required-for-non-canonical-notch-abl-signaling-in-drosophila-axon-guidance
#5
Ramakrishnan Kannan, Eric Cox, Lei Wang, Irina Kuzina, Qun Gu, Edward Giniger
Notch signaling is required for the development and physiology of nearly every tissue in metazoans. Much of Notch signaling is mediated by transcriptional regulation of downstream target genes, but Notch controls axon patterning in Drosophila by local modulation of Abl tyrosine kinase signaling, via direct interactions with the Abl co-factors Disabled and Trio. Here, we show that Notch-Abl axonal signaling requires both of the proteolytic cleavage events that initiate canonical Notch signaling. We further show that some Notch protein is tyrosine phosphorylated in Drosophila, that this form of the protein is selectively associated with Disabled and Trio, and that relevant tyrosines are essential for Notch-dependent axon patterning but not for canonical Notch-dependent regulation of cell fate...
January 17, 2018: Development
https://www.readbyqxmd.com/read/29338692/emerging-roles-for-microrna-in-the-regulation-of-drosophila-circadian-clock
#6
REVIEW
Yongbo Xue, Yong Zhang
BACKGROUND: The circadian clock, which operates within an approximately 24-h period, is closely linked to the survival and fitness of almost all living organisms. The circadian clock is generated through a negative transcription-translation feedback loop. microRNAs (miRNAs) are small non-coding RNAs comprised of approximately 22 nucleotides that post-transcriptionally regulate target mRNA by either inducing mRNA degradation or inhibiting translation. RESULTS: In recent years, miRNAs have been found to play important roles in the regulation of the circadian clock, especially in Drosophila...
January 16, 2018: BMC Neuroscience
https://www.readbyqxmd.com/read/29337989/differentially-dimensioned-furrow-formation-by-zygotic-gene-expression-and-the-mbt
#7
Yi Xie, J Todd Blankenship
Despite extensive work on the mechanisms that generate plasma membrane furrows, understanding how cells are able to dynamically regulate furrow dimensions is an unresolved question. Here, we present an in-depth characterization of furrow behaviors and their regulation in vivo during early Drosophila morphogenesis. We show that the deepening in furrow dimensions with successive nuclear cycles is largely due to the introduction of a new, rapid ingression phase (Ingression II). Blocking the midblastula transition (MBT) by suppressing zygotic transcription through pharmacological or genetic means causes the absence of Ingression II, and consequently reduces furrow dimensions...
January 16, 2018: PLoS Genetics
https://www.readbyqxmd.com/read/29337690/molecular-determinants-of-drosophila-immunophilin-fkbp39-nuclear-localization
#8
Marek Orłowski, Katarzyna Popławska, Joanna Pieprzyk, Aleksandra Szczygieł-Sommer, Anna Więch, Mirosław Zarębski, Aneta Tarczewska, Jurek Dobrucki, Andrzej Ożyhar
FK506-binding proteins (FKBPs) belong to a distinct class of immunophilins that interact with immunosuppressants. They use their peptidyl-prolyl isomerase (PPIase) activity to catalyse the cis-trans conversion of prolyl bonds in proteins during protein-folding events. FKBPs also act as a unique group of chaperones. The Drosophila melanogaster peptidylprolyl cis-trans isomerase FK506-binding protein of 39 kDa (FKBP39) is thought to act as a transcriptional modulator of gene expression in 20-hydroxyecdysone and juvenile hormone signal transduction...
June 27, 2017: Biological Chemistry
https://www.readbyqxmd.com/read/29335529/transient-scute-activation-via-a-self-stimulatory-loop-directs-enteroendocrine-cell-pair-specification-from-self-renewing-intestinal-stem-cells
#9
Jun Chen, Na Xu, Chenhui Wang, Pin Huang, Huanwei Huang, Zhen Jin, Zhongsheng Yu, Tao Cai, Renjie Jiao, Rongwen Xi
The process through which multiple types of cell-lineage-restricted progenitor cells are specified from multipotent stem cells is unclear. Here we show that, in intestinal stem cell lineages in adult Drosophila, in which the Delta-Notch-signalling-guided progenitor cell differentiation into enterocytes is the default mode, the specification of enteroendocrine cells (EEs) is initiated by transient Scute activation in a process driven by transcriptional self-stimulation combined with a negative feedback regulation between Scute and Notch targets...
January 15, 2018: Nature Cell Biology
https://www.readbyqxmd.com/read/29329398/lenup-learning-nucleosome-positioning-from-dna-sequences-with-improved-convolutional-neural-networks
#10
Juhua Zhang, Wenbo Peng, Lei Wang
Motivation: Nucleosome positioning plays significant roles in proper genome packing and its accessibility to execute transcription regulation. Despite a multitude of nucleosome positioning resources available on line including experimental datasets of genome-wide nucleosome occupancy profiles and computational tools to the analysis on these data, the complex language of eukaryotic Nucleosome positioning remains incompletely understood. Results: Here, we address this challenge using an approach based on a state-of-the-art machine learning method...
January 10, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29324767/glass-promotes-the-differentiation-of-neuronal-and-non-neuronal-cell-types-in-the-drosophila-eye
#11
Carolyn A Morrison, Hao Chen, Tiffany Cook, Stuart Brown, Jessica E Treisman
Transcriptional regulators can specify different cell types from a pool of equivalent progenitors by activating distinct developmental programs. The Glass transcription factor is expressed in all progenitors in the developing Drosophila eye, and is maintained in both neuronal and non-neuronal cell types. Glass is required for neuronal progenitors to differentiate as photoreceptors, but its role in non-neuronal cone and pigment cells is unknown. To determine whether Glass activity is limited to neuronal lineages, we compared the effects of misexpressing it in neuroblasts of the larval brain and in epithelial cells of the wing disc...
January 11, 2018: PLoS Genetics
https://www.readbyqxmd.com/read/29323275/rna-damid-reveals-cell-type-specific-binding-of-rox-rnas-at-chromatin-entry-sites
#12
Seth W Cheetham, Andrea H Brand
Thousands of long noncoding RNAs (lncRNAs) have been identified in eukaryotic genomes, many of which are expressed in spatially and temporally restricted patterns. Nonetheless, the roles of the majority of these transcripts are still unknown. One of the mechanisms by which lncRNAs function is through the modulation of chromatin states. To assess the functions of lncRNAs, we developed RNA-DamID, a novel approach that detects lncRNA-genome interactions in a cell-type-specific manner in vivo with high sensitivity and accuracy...
January 2018: Nature Structural & Molecular Biology
https://www.readbyqxmd.com/read/29321806/development-of-an-in-vitro-pre-mrna-splicing-assay-using-plant-nuclear-extract
#13
Mohammed Albaqami, Anireddy S N Reddy
Background: Pre-mRNA splicing is an essential post-transcriptional process in all eukaryotes. In vitro splicing systems using nuclear or cytoplasmic extracts from mammalian cells, yeast, and Drosophila have provided a wealth of mechanistic insights into assembly and composition of the spliceosome, splicing regulatory proteins and mechanisms of pre-mRNA splicing in non-plant systems. The lack of an in vitro splicing system prepared from plant cells has been a major limitation in splicing research in plants...
2018: Plant Methods
https://www.readbyqxmd.com/read/29309404/an-ichor-dependent-apical-extracellular-matrix-regulates-seamless-tube-shape-and-integrity
#14
Jeffrey B Rosa, Mark M Metzstein, Amin S Ghabrial
During sprouting angiogenesis in the vertebrate vascular system, and primary branching in the Drosophila tracheal system, specialized tip cells direct branch outgrowth and network formation. When tip cells lumenize, they form subcellular (seamless) tubes. How these seamless tubes are made, shaped and maintained remains poorly understood. Here we characterize a Drosophila mutant called ichor (ich), and show that ich is essential for the integrity and shape of seamless tubes in tracheal terminal cells. We find that Ich regulates seamless tubulogenesis via its role in promoting the formation of a mature apical extracellular matrix (aECM) lining the lumen of the seamless tubes...
January 8, 2018: PLoS Genetics
https://www.readbyqxmd.com/read/29306967/identification-of-tarsal-less-peptides-from-the-silkworm-bombyx-mori
#15
Guangli Cao, Yongchang Gong, Xiaolong Hu, Min Zhu, Zi Liang, Lixu Huang, Lei Yu, Jian Xu, Kun Li, Mian Sahib Zar, Renyu Xue, Chengliang Gong
The polycistronic and non-canonical gene tarsal-less (tal, known as pri) was reported to be required for embryonic and imaginal development in Drosophila; however, there are few reports of the tal gene in the silkworm Bombyx mori. Here, we cloned a tal-like (Bmtal) gene, and a sequence analysis showed that the Bmtal cDNA (1661 bp) contains five small open reading frames (smORFs) (A1, A2, A3, A4, and B) that encode short peptides of 11-12 (A1-A4) amino acid residues containing an LDPTG(E)L(Q)(V)Y motif that is conserved in Drosophila Tal, as well as a 32-amino-acid B peptide...
January 6, 2018: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/29305333/identification-of-a-clip-domain-serine-proteinase-involved-in-immune-defense-in-chinese-mitten-crab-eriocheir-sinensis
#16
Zhihao Jia, Mengqiang Wang, Huan Zhang, Xiudan Wang, Zhao Lv, Lingling Wang, Linsheng Song
Clip-domain serine proteinase is an important serine proteinase family involved in many biological processes, which is only found in invertebrates. In the present study, the full-length cDNA of a clip domain serine proteinase (designed as EsCDSP) gene was cloned from Chinese mitten crab Eriocheir sinensis using rapid amplification of cDNA ends (RACE) technique. It was of 1488 bp with an open reading frame (ORF) of 1134 bp encoding a polypeptide of 377 amino acids. There were a signal peptide, a clip domain, and a Tryp_SPc domain in the deduced amino acid sequences of EsCDSP...
January 2, 2018: Fish & Shellfish Immunology
https://www.readbyqxmd.com/read/29305299/identification-of-oaf-and-pvrl1-as-candidate-genes-for-an-ocular-anomaly-characterized-by-keratolenticular-dysgenesis-and-ectopia-lentis
#17
Dezső David, Deepti Anand, Carlos Araújo, Brian Gloss, Joana Fino, Marcel Dinger, Päivi Lindahl, Minna Pöyhönen, Laivuori Hannele, João Lavinha
Keratolenticular dysgenesis (KLD) and ectopia lentis are congenital eye defects. The aim of this study is the identification of molecular genetic alterations responsible for those ocular anomalies with neurologic impairment in an individual with a de novo balanced chromosome translocation t(11;18)(q23.3;q11.2)dn. Disruption of OAF, the human orthologue of the Drosophila oaf, by the 11q23.3 breakpoint results in reduced expression of this transcriptional regulator. Furthermore, four most likely nonfunctional chimeric transcripts comprising up to OAF exon 3, derived from the der(11) allele, have also been identified...
January 2, 2018: Experimental Eye Research
https://www.readbyqxmd.com/read/29300972/a-recurrent-de-novo-missense-mutation-in-ubtf-causes-developmental-neuroregression
#18
Camilo Toro, Roderick T Hori, May Christine V Malicdan, Cynthia J Tifft, Amy Goldstein, William A Gahl, David R Adams, Fauni Harper, Lynne A Wolfe, Jianfeng Xiao, Mohammad M Khan, Jun Tian, Kevin A Hope, Lawrence T Reiter, Michel G Tremblay, Thomas Moss, Alexis L Franks, Chris Balak, Mark S LeDoux
UBTF (upstream binding transcription factor) exists as two isoforms; UBTF1 regulates rRNA transcription by RNA polymerase 1, whereas UBTF2 regulates mRNA transcription by RNA polymerase 2. Herein, we describe 4 patients with very similar patterns of neuroregression due to recurrent de novo mutations in UBTF (GRCh37/hg19, NC_000017.10:g.42290219C>T, NM_014233.3:c.628G>A) resulting in the same amino acid change in both UBTF1 and UBTF2 (p.Glu210Lys [p.E210K]). Disease onset in our cohort was at 2.5 to 3 yrs and characterized by slow progression of global motor, cognitive and behavioral dysfunction...
January 2, 2018: Human Molecular Genetics
https://www.readbyqxmd.com/read/29295933/transcription-factor-pebbled-rreb1-regulates-injury-induced-axon-degeneration
#19
Jonathan E Farley, Thomas C Burdett, Romina Barria, Lukas J Neukomm, Kevin P Kenna, John E Landers, Marc R Freeman
Genetic studies of Wallerian degeneration have led to the identification of signaling molecules (e.g., dSarm/Sarm1, Axundead, and Highwire) that function locally in axons to drive degeneration. Here we identify a role for the Drosophila C2H2 zinc finger transcription factor Pebbled [Peb, Ras-responsive element binding protein 1 (RREB1) in mammals] in axon death. Loss of Peb in Drosophila glutamatergic sensory neurons results in either complete preservation of severed axons, or an axon death phenotype where axons fragment into large, continuous segments, rather than completely disintegrate...
January 2, 2018: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/29295891/a-peptidylic-inhibitor-for-neutralizing-expanded-cag-rna-induced-nucleolar-stress-in-polyglutamine-diseases
#20
Qian Zhang, Zhefan Stephen Chen, Ying An, Haizhen Liu, Yonghui Hou, Wen Li, Kwok-Fai Lau, Alex Koon, Jacky Ngo, Edwin Chan
Polyglutamine (polyQ) diseases are a set of progressive neurodegenerative disorders ascribed by the expression of both expanded CAG RNA and misfolded polyQ protein. We previously reported that the direct interaction between expanded CAG RNA and nucleolar protein nucleolin (NCL) leads to impediment of pre-ribosomal RNA (pre-rRNA) transcription, and eventually triggers nucleolar stress-induced apoptosis in polyQ diseases. Here, we report a 21-amino acid peptide, named beta-structured inhibitor for neurodegenerative disease (BIND), effectively suppresses expanded CAG RNA toxicity...
January 2, 2018: RNA
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