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Lamprey buccal gland secretory protein-2 (BGSP-2) inhibits human T lymphocyte proliferation

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Current Zoology 2010年第2期56卷 252-258页

作者： Jing SUN Shuiyan YU Zhuang XUE Cenjie LIU Yu WU Xin LIU Qingwei LI Institute of Marine genomics ＆ proteomics Liaoning Norrnal University Dalian 116029 China

Lamprey is a representative of the agnathans, the most ancient class of vertebrates. Parasitic lampreys secrete anticoagulant from their buccal glands and prevent blood coagulation of host fishes. We identified a buccal gland secretory protein-2 （BGSP-2） from a buccal gland cDNA library of Larnpetrajaponica. The full-length BGSP-2 gene was cloned and the recombinant BGSP-2 protein was generated. The role of BGSP-2 on lymphocyte proliferation was studied by examining its effects on human T lymphocytes. We found that lamprey BGSP-2 was able to effectively block the proliferation of T cells in vitro by inducing G1/S cell cycle arrest. Furthermore, it inhibited the proliferation of hmnan T lymphocytes stimulated by phytohemagglutinin （PHA） at a minimum concentration of 0.1μg/ml. Our data suggest that lamprey BGSP-2 is able to block the mitosis of human T lymphocytes at the G1/S point, and has the potential of anti-proliferative effect on PHA-activated T lymphocytes.

关键词： Lampetra japonica BGSP-2 Cell cycle T lymphocyte Proliferation

Comparative analysis of mitochondrial fragments transferred to the nucleus in vertebrate

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Journal of Genetics and genomics 2008年第8期35卷 485-490页

作者： Hongying Qu Fei Ma Qingwei Li Institute of Marine genomics ＆ proteomics Liaoning Normal University Dalian 116029 China

Mitochondrial DNA sequences transferred to the nucleus give rise to the so-called nuclear mitochondrial DNA （numt）. In the GenBank database, 244 numts have been found in six orders of birds （Anseriformes, Columbiformes, Falconiformes, Charadriiformes, Galliformes and Passeriformes）. Sequences alignment （NCBI-BLASTN） was carded out with mitochondrial and corresponding nuclear genome sequences in nine vertebrate species. The sequences with high homology were considered as numts. The number of numts ranged from 15 in chicken to 159 in chimpanzee. The sequences of numts in macaque, chimpanzee, and human spanned 100% of the entire mammalian mitochondrial genome. The reconstructed frequency of the mitochondrial gene transferred to the nucleus demonstrated that the rRNA genes had high frequencies than other mitochondrial genes. Using the RepeatMasker program, the transposable elements were detected in the flanking regions of each numt. The results showed that less than 5% of the flanking sequences were made up of repetitive elements in chicken. The GC content of 5＇- and 3＇-flanking regions of numts in nine species was less than 44%. The analysis of the flanking sequences provided a valuable understanding for future study on mechanism of mitochondrial gene transfer to the nucleus and the site of numt integration.

关键词： mitochondrial DNA numts nuclear insertion flanking sequence vertebrate

Making topological protein links using enzymatic reactions

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National Science Review 2024年第3期11卷 50-51页

作者： Roger Castells-Graells Todd O.Yeates Department of Chemistry and Biochemistry University of California UCLA-DOE Institute for genomics and proteomics

Proteins are exceedingly complex molecules though, at their heart, they are essentially linear polymers. Pull at their ends and one obtains an extended backbone. While that is true in most cases, some natural proteins...

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Molecular markers of phase transition in locusts

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Insect Science 2006年第1期13卷 3-12页

作者： ARNOLD DE LOOF ILSE CLAEYS GERT SIMONET PETER VERLEYEN TIM VANDERSMISSEN FILIP SAS JURGEN HUYBRECHTS Laboratory for Developmental Physiology Genomics and Proteomics Zoological Institute Leuven Belgium

The changes accompanying the transition from the gregarious to the solitary phase state in locusts are so drastic that for a long time these phases were considered as distinct species. It was Boris Uvarov who introduced the concept of polyphenism. Decades of research revealed that phase transition implies changes in morphometry, the color of the cuticle, behavior and several aspects of physiology. In particular, in the recent decade, quite a number of molecular studies have been undertaken to uncover phase-related differences. They resulted in novel insights into the role of corazonin, neuroparsins, some protease inhibitors, phenylacetonitrile and so on. The advent of EST-databases of locusts （e.g. Kang et al., 2004） is a most encouraging novel development in physiological and behavioral locust research. Yet, the answer to the most intriguing question, namely whether or not there is a primordial molecular inducer of phase transition, is probably not within reach in the very near future.

关键词： corazonin Locusta neuroparsin pacifastin phase polyphenism,phenylacetonitrile Schistocerca

Thirty Years of Multiple Sequence Codes

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genomics, proteomics & Bioinformatics 2011年第1期9卷 1-6页

作者： Edward N. Trifonov Genome Diversity Center Institute of Evolution University of Haifa Haifa 31905 Israel Division of functional genomics and proteomics Faculty of Science Masaryk University Brno 61137 Czech Republic

An overview is presented on the status of studies on multiple codes in genetic sequences. Indirectly, the existence of multiple codes is recognized in the form of several rediscoveries of Second Genetic Code that is different each time. A due credit is given to earlier seminal work related to the codes often neglected in literature. The latest developments in the field of chromatin code are discussed, as well as perspectives of single-base resolution studies of nucleosome positioning, including rotational setting of DNA on the surface of the histone octamers.

关键词： genomic code chromatin code second genetic code code interaction code degeneracy

Effect of Curcumin on Aged Drosophila Melanogaster:A Pathway Prediction Analysis

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Chinese Journal of Integrative Medicine 2015年第2期21卷 115-122页

作者：张治国牛旭艳吕爱平 Gary Guishan Xiao Institute of Basic Theory China Academy of Chinese Medical Sciences Institute of Basic Research in Clinical Medicine China Academy of Chinese Medical Sciences genomics and functional proteomics Laboratories Osteoporosis Research CenterCreighton University Medical Center

Objective： To re-analyze the data published in order to explore plausible biological pathways that can be used to explain the anti-aging effect of curcumin. Methods： Microarray data generated from other study aiming to investigate effect of curcumin on extending lifespan of Drosophila melanogaster were further used for pathway prediction analysis. The differentially expressed genes were identified by using GeneSpdng GX with a criterion of 3.0-fold change. Two Cytoscape plugins including BisoGenet and molecular complex detection （MCODE） were used to establish the protein-protein interaction （PPI） network based upon differential genes in order to detect highly connected regions. The function annotation clustering tool of Database for Annotation, Visualization and Integrated Discovery （DAVID） was used for pathway analysis. Results： A total of 87 genes expressed differentially in D. melanogaster treated with curcumin were identified, among which 50 were up-regulated significantly and 37 were remarkably down-regulated in D. melanogaster treated with curcumin. Based upon these differential genes, PPI network was constructed with 1,082 nodes and 2,412 edges. Five highly connected regions in PPI networks were detected by MCODE algorithm, suggesting anti-aging effect of curcumin may be underlined through five different pathways including Notch signaling pathway, basal transcription factors, cell cycle regulation, ribosome, Wnt signaling pathway, and p53 pathway. Conclusion： Genes and their associated pathways in D. rnelanogaster treated with anti-aging agent curcumin were identified using PPI network and MCODE algorithm, suggesting that curnumin may be developed as an alternative therapeutic medicine for treating aging-associated diseases.

关键词： anti-aging curcumin Drosophila Melanogaster pathway prediction analysis protein-protein interaction network

Gibberellin and Jasmonate Crosstalk during Stamen Development

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Journal of Integrative Plant Biology 2009年第12期51卷 1064-1070页

作者： Jinrong Peng Laboratory of functional genomics College of Animal Sciences Zhejiang University Hangzhou 310029 China

Gibberellin （GA） and jasmonate （JA） are two types of phytohormones that play important roles during stamen development. For example, Arabidopsis plants deficient in either of GA or JA develop short stamens. An apparent question to ask is whether GA action and JA action during stamen filament development are independent of each other or are in a hierarchy. Recent studies showed that GA modulates the expression of genes essential for JA biosynthesis to promote JA production and high levels of JA will induce the expression of three MYB genes MYB21, MYB24 and MYB57. These three MYB genes are crucial factors for the normal development of stamen filament in Arabidopsis.

关键词： Arabidopsis gibberellin, jasmonate, stamen development.

Phylogenetic analysis of 48 gene families revealing relationships between Hagfishes, Lampreys, and Gnathostomata

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Journal of Genetics and genomics 2008年第5期35卷 285-290页

作者： Shuiyan Yu Weiwei Zhang Ling Li Huifang Huang Fei Ma Qingwei Li Institute of Marine genomics ＆ proteomics Liaoning Normal University Dalian 116029 China Department of Medical Genetics China Medical University Shenyang 110001 China

It has become clear that the extant vertebrates are divided into three major groups, that is, hagfishes, lampreys, and jawed vertebrates. Morphological and molecular studies, however, have resulted in conflicting views with regard to their interrelationships. To clarify the phylogenetic relationships between them, 48 orthologous protein-coding gene families were analyzed. Even as the analysis of 34 nuclear gene families supported the monophyly of cyclostomes, the analysis of 14 mitochondrial gene families suggested a closer relationship between lampreys and gnathostomes compared to hagfishes. Lampreys were sister group of gnathostomes. The results of this study supported the cyclostomes. Choice of outgroup, tree-making methods, and software may affect the phylogenetic prediction, which may have caused much debate over the subject. Development of new methods for tackling such problems is still necessary.

关键词： phylogenetic relationship hagfish lamprey gnathostome outgroups tree-making method

A miniaturized assay to quantify effects of chemicals or physical stimuli upon locust activity

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Insect Science 2006年第5期13卷 401-407页

作者： BRUNO HOSTE FILIP SAS TIM VANDERSMISSEN ARNOLD DE LOOF MICHAEL BREUER JURGEN HUYBRECHTS Laboratory for Developmental Physiology Genomics and Proteomics Zoological Insitute K.U. Leuven Leuven Belgium

Solitary and gregarious locusts differ in many traits, such as body color, morphometrics and behavior. With respect to behavior, solitary animals shun each other, while gregarious animals seek each other＇s company, hence their crowding behavior. General activity, depending on the temperature, occurs throughout the day but is much lower in solitary locusts. Solitary locusts occasionally fly by night while gregarious locusts fly regularly during daytime （swarming）. In search of new assays to identify substances that control or modify aspects of （phase） behavior, we designed a simple activity assay, meant to complement existing behavioral measurement tools. The general activity is reflected in the number of wall hits, that is, the number of contacts between the locust and the vertical walls of a small arena. Using this single parameter we were able to quantify differences in total activity of both nymphs and adults of isolation-reared （solitary）, regrouped- and crowdreared （gregarious） locusts under different conditions. Furthermore, we demonstrate that there are inter- and intra-phase dependent differences in activities of 5th instar nymphs afar injections of the three different adipokinetic hormones.

关键词： AKH locomotion Locusta migratoria neurohormones phase transition Schistocerca gregaria