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Phylogeny of fireflies (Coleoptera: Lampyridae) inferred from mitochondrial 16S ribosomal DNA, with references to morphological and ethological traits

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Progress in Natural Science:Materials International 2006年第8期16卷 817-826页

作者： LI Xueyan, YANG Shuang, XIE Meng and LIANG Xingcai (laboratory of Entomology, kunming institute of zoology, chinese academy of sciences, {3. 650223. China key laboratory of cellular and molecular evolution, kunming institute of zoology, chinese academy of sciences, {3. 650223. China Graduate School of the chinese academy of sciences, Beijing 10003., China) laboratory of Entomology kunming institute of zoology chinese academy of sciences Kunming 650223 China Graduate School of the chinese academy of sciences Beijing 100039 China key laboratory of cellular and molecular evolution kunming institute of zoology Chinese Academy of Sciences Kunming 650223 China

We sequenced partial mitochondrial 16S ribosomal DNA (16S rDNA) of 18 firefly species from Southwest of China. Combined with homologous sequences previously reported, phylogenetic trees including Japanese, Korean and chinese species were reconstructed by neighbor-joining, maximum parsimony and Bayesian methods. All reconstructions agree on most nodes of the trees. Monophyly of Lampyridae is not supported because Rhagophthalmus ohbai in Rhagophthalmidae is included within it. Lamprigera, a genus placed unreliably in Lampyrinae, shows a close relationship to Amydetinae. Monophyly of Luciolinae is not supported because Pristolycus sagulatus (Lampyrinae) is included within it. In the Luciolinae, monophyly of Curtos and Hotaria is well established, respectively, but both morphological and molecular data continue to indicate that Luciola is not monophyletic and its subdivision is indeed necessary. Within the Lampyrinae, both Pyrocoelia and Diaphanes are not monophyletic, but monophyly of Pyrocoelia + Diaphanes is well supported. Phylogeny of Diaphanes is discussed for the first time. Generic placement of a newly discovered species (Diaphanes pectinealis Li et Liang) sharing some characters of Pyrocoelia and Diaphanes challenges the delimitation of these two similar genera. With references to the firefly mating systems, we suggest that more emphases should be placed on those sexually selected characters such as antennal structure in taxonomy of Lampyridae.

关键词： Lampyridae mitochondrial 16S rDNA morphological and ethological traits phylogeny.

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Melanocortin-1 receptor gene variants in four chinese ethnic populations

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Cell Research 2001年第1期11卷 81-84页

作者： SHI PENG, XUE MEI LU, HUAI RONG LUO, JIN-GONG XIANG-YU, YA PING ZHANG (laboratory of cellular and molecular {3., kunming institute of zoology, the chinese academy of sciences, kunming 650223. China) laboratory of cellular and molecular {3. Kunming Institute of Zoology the Chinese Academy of Sciences Kunming China

There is strong relationship between melanocortin-1 receptor (MCIR) gene variants and human hair color and skin type. Based on a sequencing study of MC1R gene in 50 individuals from the Uygur, Tibetan, Wa and Dai ethnic populations, we discuss the occurrence of 7 mc1r variants consisting of 5 nonsynonymous sites (Val60Leu, Arg67Gln, Val92Met, Arg163.ln and Ala299Val) and 2 synonymous sites (C414T and A942G), among which C414T and Ala299Val were reported for the first time. Confirmation and analysis were the made of 122 individuals at three common point mutations (Val92Met, Arg163.ln, A942G) using PCR-SSCP. The frequency of Arg163.ln variant varies in the four ethnic populations, with percentage of 40%, 85.0%, 66. 2% and 72.7%, respectively, while those of Val92Met and A942G are roughly similar in these four populations. The different environments, migration and admixture of various ethnic groups in China might have impact on the observed frequency of Arg163.ln.

关键词： MC1R gene ethnic populations nonsynonymous site synonymous site.

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Dynamics of RNA with A6 bulge loop

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chinese Science Bulletin 2002年第12期47卷 1003-1006页

作者： LIANG Chongrong & LIU Ciquankey laboratory of cellular & {3. evolution, kunming institute of zoology, chinese academy of sciences, kunming 650223. China Biology Department, Jinan University, Guangzhou 51063., China key laboratory of cellular & {3. evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming China Biology Department Jinan University Guangzhou China

In order to understand the behavior of RNAs with large bulges in solution, molecular dynamics was performed on the RNA molecule in water with A6 bulge. The result of simulation showed that nonstacked conformation is the main conformation in large bulges, and the backbone of large bulge is of great conformational flexibility, but bulges-induced bends are relatively rigid. The fluctuation in bulge has little influence on the bend angle of RNAs.

关键词： RNA large bulge conformation bend angle.

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Fractals of Protein Backbone Structures

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生物数学学报 1997年第S1期12卷 385-392页

作者： Huang Jingfei Liu Ciquan(laboratory of cellular and molecular {3.,kunming institute of zoology,The chinese academy of sciences,kunming,Yunnan 650223.

Ths paper，based on the principles of geometric self-similarity of fractal theory and some research results of rotein chemistry，improved the method of comput－ing protein fractal dimensions，and computed fractal dimensions of some protein back bone，secondary and assumed folding *** relationship between protein back-bone strucrural fractal dimensions and its spatial structures was *** results indicated that protein backbone fractal dimensions not only have a close relation with protein secondary structure，but also with its *** addition，the folding of protein Polypeptide chains in 3.D space may be similar to the other macromolecular chain be haviour described by the self-avoiding walks（SAW）model．

关键词： Fractal dimension protein backbone structure secondary structure folding

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Genomic organization and sequence analysis of the vomeronasal receptor V2R genes in mouse genome

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chinese Science Bulletin 2007年第3期52卷 336-342页

作者： YANG Hui1,2 & Zhang YaPing1,3.1 laboratory of cellular and molecular {3., kunming institute of zoology, chinese academy of sciences, kunming 650223. China 2 Graduate University of the chinese academy of sciences, Beijing 100049, China 3.laboratory for Conservation and Utilization of Bio-resources, Yunnan University, kunming 650091, China laboratory of cellular and molecular {3. Kunming Institute of Zoology Chinese Academy of Sciences Kunming China Graduate University of the chinese academy of sciences Beijing China laboratory for Conservation and Utilization of Bio-resources Yunnan University Kunming China

Two multigene superfamilies, named V1R and V2R, encoding seven-transmembrane-domain G-protein coupled receptors (GPCRs) have been identified as pheromone receptors in mammals. Three V2R gene families have been described in mouse and rat. Here we screened the updated mouse genome se- quence database and finally retrieved 63.putative functional V2R genes including three newly identified genes which formed a new additional family. We described the genomic organization of these genes and also characterized the conservation of mouse V2R protein sequences. These genomic and se- quence information we described are useful as part of the evidence to speculate the functional domain of V2Rs and should give aid to the functionality study in the future.

关键词：大白鼠基因组犁鼻受体2 多基因超家族序列分析

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Characterization of Giardia cell nucleus:Its implication on the nature and origin of the primitive cell nucleus

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Cell Research 1995年第1期5卷 115-124页

作者： LI JINGYAN (Department of evolutionary Cell Biology, laboratory of cellular and {3. evolution, kunming institute of zoology, chinese academy of sciences, kunming 650223. China.) Department of evolutionary Cell Biology Laboratory of Cellular and Molecular Evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming China

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A possible mode of the specific recognition of nucleic acids by proteins

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chinese Science Bulletin 2001年第11期46卷 930-934页

作者： LI Xuqing & LIU CiquanDepartment of Computer Science, kunming University of Science and Technology, kunming 650041, China laboratory of {3. and molecular evolution, kunming institute of zoology, chinese academy of sciences, kunming 650223. China Yunnan Observatory, chinese academy of sciences, kunming 650011, China 4. Modern Biological Center, Yunnan University, kunming 650091, China Department of Computer Science Kunming University of Science and Technology Kunming China Yunnan Observatory Chinese Academy of Sciences Kunming China laboratory of cellular and molecular {3. Kunming Institute of Zoology Chinese Academy of Sciences Kunming China Modern Biological Center Yunnan University Kunming China

Seven sets of protein target sites, which occur in several gene promoters, have been analyzed. The results suggest that there is a possible mode of specific recognition of double-helical nucleic acids by proteins. This recognition mode is related to a special topological property of double-helical DNA, which is termed base spatial pattern (BSP) of DNA segment. BSP is the spatial topological property determined only by the spatial arrangement of the bases on double-helical DNA segment.

关键词： protein nucleic acids recognition base spatial pattern (BSP) target sites.

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Perspectives on the origin of microfilaments, microtubules, the relevant chaperonin system and cytoskeletal motors- a commentary on the spiro chaete origin of flagella

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Cell Research 2003年第4期13卷 219-227页

作者： JING YAN LI, CHUAN FEN WUlaboratory of cellular and molecular {3., kunming institute of zoology, chinese academy of sciences, kunming, Yunnan 650223. China Department of molecular Genetics, M. D. Anderson Cancer Center, The University of Texas, Houston, TX 7703., USA laboratory of cellular and molecular {3. Kunming Institute of Zoology Chinese Academy of Sciences Kunming China

The origin of cytoskeleton and the origin of relevant intracellular transportation system are big problems for understanding the emergence of eukaryotic cells. The present article summarized relevant information of evidences and molecular traces on the origin of actin, tubulin, the chaperonin system for folding them, myosins, kinesins, axonemal dyneins and cytoplasmic dyneins. On this basis the authors proposed a series of works, which should be done in the future, and indicated the ways for reaching the targets. These targets are mainly: 1) the reconstruction of evolutionary path from MreB protein of archaeal ancestor of eukaryotic cells to typical actin; 2) the finding of the MreB or MreB-related proteins in crenarchaea and using them to examine J. A. Lake’s hypothesis on the origin of eukaryote from 'eocytes' (crenarchaea); 3. the examinations of the existence and distribution of cytoskeleton made of MreB-related protein within coccoid archaea, especially in amoeboid archaeon Thermoplasm acidophilum;

关键词： origin actin tubulin motor proteins Bagella and cilia spirochaete hypothesis.

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Identification, characteristic and phylogenetic analysis of type II DNA topoisomerase gene in Giardia lamblia

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Cell Research 2005年第6期15卷 474-482页

作者： De HE1, 2, 3. Jian Fan WEN1,*, Wan Qun CHEN1, Si Qi LU4, De Dong XIN1, 21 key laboratory of cellular and molecular evolution, kunming institute of zoology, chinese academy of sciences, {3. 650223. China2 Gradulate School of the chinese academy of sciences, Beijing 10003., China3.Southwest Forestry College, {3. 650224, China4 Capital University of Medical sciences, Beijing 100054, China key laboratory of cellular and molecular evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming China Gradulate School of the chinese academy of sciences Beijing China Southwest Forestry College Kunming China Capital University of Medical sciences Beijing China

The genes encoding type II DNA topoisomerases were investigated in Giardia lamblia genome, and a type IIA gene,GlTop 2 was identified. It is a single copy gene with a 4476 bp long ORF without intron. The deduced amino acidsequence shows strong homology to eukaryotic DNA Top 2. However, some distortions were found, such as sixinsertions in the ATPase domain and the central domain, a ~100 aa longer central domain; a ~200 aa shorter C-terminaldomain containing rich charged residues. These features revealed by comparing with Top 2 of the host, human, mightbe helpful in exploiting drug selectivity for antigiardial therapy. Phylogenetic analysis of eukaryotic enzymes showedthat kinetoplastids, plants, fungi, and animals were monophyletic groups, and the animal and fungi lineages shared amore recent common ancestor than either did with the plant lineage; microsporidia grouped with fungi. However, unlikemany previous phylogenetic analyses, the “amitochondriate” G. lamblia was not the earliest branch but diverged aftermitochondriate kinetoplastids in our trees. Both the finding of typical eukaryotic type IIA topoisomerase and the phylo-genetic analysis suggest G. lamblia is not possibly as primitive as was regarded before and might diverge after theacquisition of mitochondria. This is consistent with the recent discovery of mitochondrial remnant organelles in G. lamblia.

关键词： evolutionary position GlTop2 gene Giardia lamblia identification phylogenetic analysis type II DNAtopoisomerase.

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molecular evolution of stress-response gene Leptin in high-altitude chinese snub-nosed mon{3.s (Rhinopithecus genus)

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chinese Science Bulletin 2010年第36期55卷 4132-4135页

作者： WANG XiaoPing1,2, JIN Wei1,2, YU Li1,2 & ZHANG YaPing1,2 1 laboratory for Conservation and Utilization of Bio-resource, Yunnan University, kunming 650091, China 2 State key laboratory of Genetic Resources and evolution, kunming institute of zoology, chinese academy of sciences, kunming 650223. China laboratory for Conservation and Utilization of Bio-resource Yunnan University Kunming China State key laboratory of Genetic Resources and evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming China

chinese snub-nosed monkeys (genus Rhinopithecus, subfamily Colobinae), including R. bieti, R. brelichi and R. roxellana, are well-known as the non-human primates with the highest known altitudinal distribution. They represent an interesting model organism of adaptation to the extreme environmental stresses. However, no study at the molecular level has yet been reported for the high-altitude adaptation in chinese snub-nosed monkeys. Leptin, as an adipocyte-derived hormone, is believed to play an important role in energy homeostasis in adaptation to high altitude environments. In the present study, we sequenced and compared leptin sequences of the chinese snub-nosed monkeys (R. bieti and R. roxellana) with their lowland close relative R. avunculus and other Colobines. Unexpectedly, no amino acid changes were observed in the 7 Colobinae species examined, including the 2 chinese snub-nosed monkeys, indicating no difference in the evolutionary pattern of the Leptin gene between high-altitude monkeys and their lowland counterparts. In contrast to a previous finding of adaptive evolution of Leptin gene in plateau pikas, our study suggests that this gene may not have an important role in high-altitude adaptation of chinese snub-nosed monkeys. Other nuclear genes associated with energy metabolism, or mitochondrial genes, are most likely to be involved the molecular mechanism underlying adaptation of these monkeys to cold and hypoxia associated with the highland environment.

关键词： Leptin基因金丝猴属瘦素基因压力反应分子进化高空鼻极端环境

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