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Chromosoma

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https://www.readbyqxmd.com/read/28593374/chromatin-loops-and-causality-loops-the-influence-of-rna-upon-spatial-nuclear-architecture
#1
REVIEW
Iain A Sawyer, Miroslav Dundr
An intrinsic and essential trait exhibited by cells is the properly coordinated and integrated regulation of an astoundingly large number of simultaneous molecular decisions and reactions to maintain biochemical homeostasis. This is especially true inside the cell nucleus, where the recognition of DNA and RNA by a vast range of nucleic acid-interacting proteins organizes gene expression patterns. However, this dynamic system is not regulated by simple "on" or "off" signals. Instead, transcription factor and RNA polymerase recruitment to DNA are influenced by the local chromatin and epigenetic environment, a gene's relative position within the nucleus and the action of noncoding RNAs...
June 7, 2017: Chromosoma
https://www.readbyqxmd.com/read/28527011/the-prdm9-krab-domain-is-required-for-meiosis-and-involved-in-protein-interactions
#2
Yukiko Imai, Frédéric Baudat, Miguel Taillepierre, Marcello Stanzione, Attila Toth, Bernard de Massy
PR domain-containing protein 9 (PRDM9) is a major regulator of the localization of meiotic recombination hotspots in the human and mouse genomes. This role involves its DNA-binding domain, which is composed of a tandem array of zinc fingers, and PRDM9-dependent trimethylation of histone H3 at lysine 4. PRDM9 is a member of the PRDM family of transcription regulators, but unlike other family members, it contains a Krüppel-associated box (KRAB)-related domain that is predicted to be a potential protein interaction domain...
May 19, 2017: Chromosoma
https://www.readbyqxmd.com/read/28365783/dual-effect-of-the-wheat-ph1-locus-on-chromosome-synapsis-and-crossover
#3
Azahara C Martín, María-Dolores Rey, Peter Shaw, Graham Moore
Allopolyploids must possess a mechanism for facilitating synapsis and crossover (CO) between homologues, in preference to homoeologues (related chromosomes), to ensure successful meiosis. In hexaploid wheat, the Ph1 locus has a major effect on the control of these processes. Studying a wheat mutant lacking Ph1 provides an opportunity to explore the underlying mechanisms. Recently, it was proposed that Ph1 stabilises wheat during meiosis, both by promoting homologue synapsis during early meiosis and preventing MLH1 sites on synapsed homoeologues from becoming COs later in meiosis...
April 1, 2017: Chromosoma
https://www.readbyqxmd.com/read/28213686/the-iswi-remodeler-in-plants-protein-complexes-biochemical-functions-and-developmental-roles
#4
REVIEW
Dongjie Li, Jie Liu, Wu Liu, Guang Li, Zhongnan Yang, Peng Qin, Lin Xu
Imitation Switch (ISWI) is a member of the ATP-dependent chromatin remodeling factor family, whose members move or restructure nucleosomes using energy derived from ATP hydrolysis. ISWI proteins are conserved in eukaryotes and usually form complexes with DDT (DNA-binding homeobox and different transcription factors)-domain proteins. Here, we review recent research on ISWI in the model plant Arabidopsis thaliana (AtISWI). AtISWI forms complexes with AtDDT-domain proteins, many of which have domain structures that differ from those of DDT-domain proteins in yeast and animals...
June 2017: Chromosoma
https://www.readbyqxmd.com/read/27837282/the-chromosomal-basis-of-meiotic-acentrosomal-spindle-assembly-and-function-in-oocytes
#5
REVIEW
Sarah J Radford, Alexandra L Nguyen, Karen Schindler, Kim S McKim
Several aspects of meiosis are impacted by the absence of centrosomes in oocytes. Here, we review four aspects of meiosis I that are significantly affected by the absence of centrosomes in oocyte spindles. One, microtubules tend to assemble around the chromosomes. Two, the organization of these microtubules into a bipolar spindle is directed by the chromosomes. Three, chromosome bi-orientation and attachment to microtubules from the correct pole require modification of the mechanisms used in mitotic cells. Four, chromosome movement to the poles at anaphase cannot rely on polar anchoring of spindle microtubules by centrosomes...
June 2017: Chromosoma
https://www.readbyqxmd.com/read/27638401/investigating-somatic-aneuploidy-in-the-brain-why-we-need-a-new-model
#6
REVIEW
Jimi L Rosenkrantz, Lucia Carbone
The steady occurrence of DNA mutations is a key source for evolution, generating the genomic variation in the population upon which natural selection acts. Mutations driving evolution have to occur in the oocytes and sperm in order to be transmitted to the next generation. Through similar mechanisms, mutations also accumulate in somatic cells (e.g., skin cells, neurons, lymphocytes) during development and adult life. The concept that somatic cells can collect new mutations with time suggests that we are a mosaic of cells with different genomic compositions...
June 2017: Chromosoma
https://www.readbyqxmd.com/read/27300555/transvection-in-drosophila-trans-interaction-between-yellow-enhancers-and-promoter-is-strongly-suppressed-by-a-cis-promoter-only-in-certain-genomic-regions
#7
Oksana Kravchuk, Maria Kim, Pavel Klepikov, Alexander Parshikov, Pavel Georgiev, Mikhail Savitsky
Transvection is a phenomenon of interallelic communication whereby enhancers of one allele can activate a promoter located on the homologous chromosome. It has been shown for many independent genes that enhancers preferentially act on the cis-linked promoter, but deletion of this promoter allows the enhancers to act in trans. Here, we tested whether this cis-preference in the enhancer-promoter interaction could be reconstituted outside of the natural position of a gene. The yellow gene was chosen as a model system...
June 2017: Chromosoma
https://www.readbyqxmd.com/read/27277787/coordination-of-the-recruitment-of-the-fancd2-and-palb2-fanconi-anemia-proteins-by-an-ubiquitin-signaling-network
#8
Gregory Bick, Fan Zhang, A Ruhikanta Meetei, Paul R Andreassen
Fanconi anemia (FA) is a chromosome instability syndrome and the 20 identified FA proteins are organized into two main arms which are thought to function at distinct steps in the repair of DNA interstrand crosslinks (ICLs). These two arms include the upstream FA pathway, which culminates in the monoubiquitination of FANCD2 and FANCI, and downstream breast cancer (BRCA)-associated proteins that interact in protein complexes. How, and whether, these two groups of FA proteins are integrated is unclear. Here, we show that FANCD2 and PALB2, as indicators of the upstream and downstream arms, respectively, colocalize independently of each other in response to DNA damage induced by mitomycin C (MMC)...
June 2017: Chromosoma
https://www.readbyqxmd.com/read/27165042/the-enigmatic-meiotic-dense-body-and-its-newly-discovered-component-scml1-are-dispensable-for-fertility-and-gametogenesis-in-mice
#9
Frantzeskos Papanikos, Katrin Daniel, Angelique Goercharn-Ramlal, Ji-Feng Fei, Thomas Kurth, Lukasz Wojtasz, Ihsan Dereli, Jun Fu, Josef Penninger, Bianca Habermann, Azim Surani, A Francis Stewart, Attila Toth
Meiosis is a critical phase in the life cycle of sexually reproducing organisms. Chromosome numbers are halved during meiosis, which requires meiosis-specific modification of chromosome behaviour. Furthermore, suppression of transposons is particularly important during meiosis to allow the transmission of undamaged genomic information between generations. Correspondingly, specialized genome defence mechanisms and nuclear structures characterize the germ line during meiosis. Survival of mammalian spermatocytes requires that the sex chromosomes form a distinct silenced chromatin domain, called the sex body...
June 2017: Chromosoma
https://www.readbyqxmd.com/read/27153834/chromosome-identification-for-the-carnivorous-plant-genlisea-margaretae
#10
Trung D Tran, Hana Šimková, Renate Schmidt, Jaroslav Doležel, Ingo Schubert, Jörg Fuchs
Genlisea margaretae, subgenus Genlisea, section Recurvatae (184 Mbp/1C), belongs to a plant genus with a 25-fold genome size difference and an extreme genome plasticity. Its 19 chromosome pairs could be distinguished individually by an approach combining optimized probe pooling and consecutive rounds of multicolor fluorescence in situ hybridization (mcFISH) with bacterial artificial chromosomes (BACs) selected for repeat-free inserts. Fifty-one BACs were assigned to 18 chromosome pairs. They provide a tool for future assignment of genomic sequence contigs to distinct chromosomes as well as for identification of homeologous chromosome regions in other species of the carnivorous Lentibulariaceae family, and potentially of chromosome rearrangements, in cases where more than one BAC per chromosome pair was identified...
June 2017: Chromosoma
https://www.readbyqxmd.com/read/27150106/loss-of-drosophila-nucleostemin-2-ns2-blocks-nucleolar-release-of-the-60s-subunit-leading-to-ribosome-stress
#11
Yubo Wang, Patrick DiMario
Four nucleostemin-like proteins (nucleostemin (NS) 1-4) were identified previously in Drosophila melanogaster. NS1 and NS2 are nucleolar proteins, while NS3 and NS4 are cytoplasmic proteins. We showed earlier that NS1 (homologous to human GNL3) enriches within the granular components (GCs) of Drosophila nucleoli and is required for efficient maturation or nucleolar release of the 60S subunit. Here, we show that NS2 is homologous to the human nucleostemin-like protein, Ngp1 (GNL2), and that endogenous NS2 is expressed in both progenitor and terminally differentiated cell types...
June 2017: Chromosoma
https://www.readbyqxmd.com/read/28343235/transcription-dependent-radial-distribution-of-tcf7l2-regulated-genes-in-chromosome-territories
#12
Keyvan Torabi, Darawalee Wangsa, Immaculada Ponsa, Markus Brown, Anna Bosch, Maria Vila-Casadesús, Tatiana S Karpova, Maria Calvo, Antoni Castells, Rosa Miró, Thomas Ried, Jordi Camps
Human chromosomes occupy distinct territories in the interphase nucleus. Such chromosome territories (CTs) are positioned according to gene density. Gene-rich CTs are generally located in the center of the nucleus, while gene-poor CTs are positioned more towards the nuclear periphery. However, the association between gene expression levels and the radial positioning of genes within the CT is still under debate. In the present study, we performed three-dimensional fluorescence in situ hybridization experiments in the colorectal cancer cell lines DLD-1 and LoVo using whole chromosome painting probes for chromosomes 8 and 11 and BAC clones targeting four genes with different expression levels assessed by gene expression arrays and RT-PCR...
March 25, 2017: Chromosoma
https://www.readbyqxmd.com/read/27631793/nuclear-morphologies-their-diversity-and-functional-relevance
#13
REVIEW
Benjamin M Skinner, Emma E P Johnson
Studies of chromosome and genome biology often focus on condensed chromatin in the form of chromosomes and neglect the non-dividing cells. Even when interphase nuclei are considered, they are often then treated as interchangeable round objects. However, different cell types can have very different nuclear shapes, and these shapes have impacts on cellular function; indeed, many pathologies are linked with alterations to nuclear shape. In this review, we describe some of the nuclear morphologies beyond the spherical and ovoid...
March 2017: Chromosoma
https://www.readbyqxmd.com/read/27169573/the-repetitive-dna-element-bncdna-enriched-in-the-b-chromosome-of-the-cichlid-fish-astatotilapia-latifasciata-transcribes-a-potentially-noncoding-rna
#14
Érica Ramos, Adauto L Cardoso, Judith Brown, Diego F Marques, Bruno E A Fantinatti, Diogo C Cabral-de-Mello, Rogério A Oliveira, Rachel J O'Neill, Cesar Martins
Supernumerary chromosomes have been studied in many species of eukaryotes, including the cichlid fish, Astatotilapia latifasciata. However, there are many unanswered questions about the maintenance, inheritance, and functional aspects of supernumerary chromosomes. The cichlid family has been highlighted as a model for evolutionary studies, including those that focus on mechanisms of chromosome evolution. Individuals of A. latifasciata are known to carry up to two B heterochromatic isochromosomes that are enriched in repetitive DNA and contain few intact gene sequences...
March 2017: Chromosoma
https://www.readbyqxmd.com/read/27136940/east-affects-the-activity-of-su-hw-insulators-by-two-different-mechanisms-in-drosophila-melanogaster
#15
Larisa Melnikova, Igor Shapovalov, Margarita Kostyuchenko, Pavel Georgiev, Anton Golovnin
Recent data suggest that insulators organize chromatin architecture in the nucleus. The best characterized Drosophila insulator, found in the gypsy retrotransposon, contains 12 binding sites for the Su(Hw) protein. Enhancer blocking, along with Su(Hw), requires BTB/POZ domain proteins, Mod(mdg4)-67.2 and CP190. Inactivation of Mod(mdg4)-67.2 leads to a direct repression of the yellow gene promoter by the gypsy insulator. Here, we have shown that such repression is regulated by the level of the EAST protein, which is an essential component of the interchromatin compartment...
March 2017: Chromosoma
https://www.readbyqxmd.com/read/27136939/dna-repair-kinetics-in-scid-mice-sertoli-cells-and-dna-pkcs-deficient-mouse-embryonic-fibroblasts
#16
Emad A Ahmed, Eukene Vélaz, Michael Rosemann, Klaus-P Gilbertz, Harry Scherthan
Noncycling and terminally differentiated (TD) cells display differences in radiosensitivity and DNA damage response. Unlike other TD cells, Sertoli cells express a mixture of proliferation inducers and inhibitors in vivo and can reenter the cell cycle. Being in a G1-like cell cycle stage, TD Sertoli cells are expected to repair DSBs by the error-prone nonhomologous end-joining pathway (NHEJ). Recently, we have provided evidence for the involvement of Ku-dependent NHEJ in protecting testis cells from DNA damage as indicated by persistent foci of the DNA double-strand break (DSB) repair proteins phospho-H2AX, 53BP1, and phospho-ATM in TD Sertoli cells of Ku70-deficient mice...
March 2017: Chromosoma
https://www.readbyqxmd.com/read/27116032/bub1-targeting-to-centromeres-is-sufficient-for-sgo1-recruitment-in-the-absence-of-kinetochores
#17
Samantha J Williams, Ariane Abrieu, Ana Losada
Centromeric chromatin containing the histone H3 variant centromere protein A (CENP-A) directs kinetochore assembly through a hierarchical binding of CENPs, starting with CENP-C and CENP-T. Centromeres are also the chromosomal regions where cohesion, mediated by cohesin, is most prominently maintained in mitosis. While most cohesin dissociates from chromosome arms in prophase, Shugoshin 1 (Sgo1) prevents this process at centromeres. Centromeric localization of Sgo1 depends on histone H2A phosphorylation by the kinase Bub1, but whether additional interactions with kinetochore components are required for Sgo1 recruitment is unclear...
March 2017: Chromosoma
https://www.readbyqxmd.com/read/27080536/integrated-gene-mapping-and-synteny-studies-give-insights-into-the-evolution-of-a-sex-proto-chromosome-in-solea-senegalensis
#18
Silvia Portela-Bens, Manuel Alejandro Merlo, María Esther Rodríguez, Ismael Cross, Manuel Manchado, Nadezda Kosyakova, Thomas Liehr, Laureana Rebordinos
The evolution of genes related to sex and reproduction in fish shows high plasticity and, to date, the sex determination system has only been identified in a few species. Solea senegalensis has 42 chromosomes and an XX/XY chromosome system for sex determination, while related species show the ZZ/ZW system. Next-generation sequencing (NGS), multi-color fluorescence in situ hybridization (mFISH) techniques, and bioinformatics analysis have been carried out, with the objective of revealing new information about sex determination and reproduction in S...
March 2017: Chromosoma
https://www.readbyqxmd.com/read/27001473/new-insights-into-sex-chromosome-evolution-in-anole-lizards-reptilia-dactyloidae
#19
M Giovannotti, V A Trifonov, A Paoletti, I G Kichigin, P C M O'Brien, F Kasai, G Giovagnoli, B L Ng, P Ruggeri, P Nisi Cerioni, A Splendiani, J C Pereira, E Olmo, W Rens, V Caputo Barucchi, M A Ferguson-Smith
Anoles are a clade of iguanian lizards that underwent an extensive radiation between 125 and 65 million years ago. Their karyotypes show wide variation in diploid number spanning from 26 (Anolis evermanni) to 44 (A. insolitus). This chromosomal variation involves their sex chromosomes, ranging from simple systems (XX/XY), with heterochromosomes represented by either micro- or macrochromosomes, to multiple systems (X1X1X2X2/X1X2Y). Here, for the first time, the homology relationships of sex chromosomes have been investigated in nine anole lizards at the whole chromosome level...
March 2017: Chromosoma
https://www.readbyqxmd.com/read/26921073/chromosomal-aneuploidies-induced-upon-lamin-b2-depletion-are-mislocalized-in-the-interphase-nucleus
#20
Devika Ranade, Shivsmriti Koul, Joyce Thompson, Kumar Brajesh Prasad, Kundan Sengupta
Chromosome territories assume non-random positions in the interphase nucleus with gene-rich chromosomes localized toward the nuclear interior and gene-poor chromosome territories toward the nuclear periphery. Lamins are intermediate filament proteins of the inner nuclear membrane required for the maintenance of nuclear structure and function. Here, we show using whole-genome expression profiling that Lamin A/C or Lamin B2 depletion in an otherwise diploid colorectal cancer cell line (DLD1) deregulates transcript levels from specific chromosomes...
March 2017: Chromosoma
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