Cloning and developmental expression of MARK/Par-1/MELK-related protein kinase xMAK-V in<Emphasis Type="Italic"> Xenopus laevis</Emphasis>

MAK-V/Hunk is a recently identified MARK/Par-1-related mammalian protein kinase. Although the precise function of this protein kinase is yet to be established, available data suggest its involvement in animals development and in the physiology of the nervous system. Here we report characterization of a cDNA encoding Xenopus laevis orthologue of MAK-V/Hunk protein kinase, xMAK-V. The in silico analysis also revealed MAK-V/Hunk orthologues in the fish Fugu rubripes and primitive chordate Ciona intestinalis but not in invertebrate species such as Drosophila melanogaster and Caenorhabditis elegans, suggesting that MAK-V/Hunk is a chordate-specific protein kinase. The expression of xmak-v in X. laevis embryos was analyzed using whole-mount in situ hybridization. Expression of xmak-v has been detected in all developmental stages studied including maternal expression in unfertilized eggs. The xmak-v mRNA has a predominant occurrence on the animal hemisphere of the egg, and this pattern of expression is sustained throughout cleavage and blastula stages. At the gastrula stage xmak-v expression is restricted to the ectoderm. In the later stage embryos xmak-v is expressed over the entire embryonic surface including the open neural plate at stage 15 and also in neural tube at stage 22. At tadpole stage xmak-v expression is strong in embryonic epidermis, nervous system and sensory organs, and is also obvious in perisomitic mesoderm and brachial arches.Edited by N. Satoh     

Comparative analysis of the DRADA A-to-I RNA editing gene from mammals, pufferfish and zebrafish

The DRADA gene in mammals encodes an A-to-I RNA editase, an adenosine deaminase that acts on pre-mRNAs to produce site specific inosines. DRADA has been shown to deaminate specific adenosine residues in a subset of glutamate and serotonin receptors, and this editing results in proteins of altered sequences and functional properties. DRADA thus plays a role in creating protein diversity. To study the evolutionary significance of this gene, we have characterized the genomic structure of DRADA from Fugu rubripes, and compared the protein sequences of DRADA from mammals, pufferfish and zebrafish. The DRADA gene from Fugu is three-fold compacted with respect to the human gene, and contains a novel intron within the large second coding exon. DRADA cDNAs were isolated from zebrafish and a second pufferfish, Tetraodon fluviatilis. Comparisons among fish, and between fish and mammals, of the protein sequences show that the catalytic domains are highly conserved for each gene, while the RNA binding domains vary within a single protein in their levels of conservation. Conservation within the Z DNA binding domain has also been assessed. Different levels of conservation among domains of different functional roles may reflect differences in editase substrate specificity and/or substrate sequence conservation.     

陕西府谷自然保护区杜松种群的空间分布格局及其动态

采用方差/均值比率法和5个聚集度指标研究了陕西府谷自然保护区杜松(Juniperus rigida Sieb.etZucc.)种群15个样地的空间分布格局及动态特征。结果表明,杜松种群的空间分布格局为聚集分布,其v/m值、负二项参数、聚块性指数、丛生指数、平均拥挤度和Morisita指数分别为1.98、1.84、1.54、0.98、2.79和1.54。随着径级的增大,聚块性指数逐渐减小,种群的聚集程度也减小,Ⅶ级大树呈随机分布,该种群表现出明显的扩散趋势。调查发现,人为干扰对杜松种群的空间分布格局有较大影响。     

Identification and characterization of cichlid TAAR genes and comparison with other teleost TAAR repertoires

Background

TAARs (trace amine-associated receptors) are among the principal receptors expressed by the olfactory epithelium. We used the recent BROAD Institute release of the genome sequences of five representative fishes of the cichlid family to establish the complete TAAR repertoires of these species and to compare them with five other fish TAAR repertoires.

Results

The genome sequences of O. niloticus, P. nyererei, H. burtoni, N. brichardi and M. zebra were analyzed by exhaustive TBLASTN searches with a set of published TAAR gene sequences used as positive bait. A second TBLASTN analysis was then performed on the candidate genes, with a set of non-TAAR class A GPCR (G protein-coupled receptors) used as negative bait. The resulting cichlid repertoire contained 44 complete TAAR genes from O. niloticus, 18 from P. nyererei, 23 from H. burtoni, 12 from N. brichardi and 20 from M. zebra, plus a number of pseudogenes, edge genes and fragments. A large proportion of these sequences (80%) consisted of two coding exons, separated in all but two cases by an intron in the interloop 1 coding sequence. We constructed phylogenetic trees. These trees indicated that TAARs constitute a distinct clade, well separated from ORs (olfactory receptors) and other class A GPCRs. Also these repertoires consist of several families and subfamilies, a number of which are common to fugu, tetraodon, stickleback and medaka. Like all other TAARs identified to date, cichlid TAARs have a characteristic two-dimensional structure and contain a number of amino-acid motifs or amino acids, such cysteine, in particular conserved positions.

Conclusions

Little is known about the functions of TAARs: in most cases their ligands have yet to be identified, partly because appropriate methods for such investigations have not been developed. Sequences analyses and comparisons of TAARs in several animal species, here fishes living in the same environment, should help reveal their roles and whether they are complementary to that of ORs.

Electronic supplementary material

The online version of this article (doi:10.1186/s12864-015-1478-4) contains supplementary material, which is available to authorized users.     

陕西府谷发现的晚中新世维氏大唇犀(奇蹄目,犀科)新材料

新材料有丰富的头骨和下颌骨标本,因而对维氏大唇犀有了更加深入的了解。观察结果显示维氏大唇犀在大唇犀属中的地位相当特别,它具有极窄的顶嵴间平面、马鞍形的头骨顶面、发育的眶上结节和较高的枕面,这些特征显示出它是所有已知大唇犀中最原始的一个种。     

Evolution of Otx paralogue usages in early patterning of the vertebrate head

To assess evolutional changes in the expression pattern of Otx paralogues, expression analyses were undertaken in fugu, bichir, skate and lamprey. Together with those in model vertebrates, the comparison suggested that a gnathostome ancestor would have utilized all of Otx1, Otx2 and Otx5 paralogues in organizer and anterior mesendoderm for head development. In this animal, Otx1 and Otx2 would have also functioned in specification of the anterior neuroectoderm at presomite stage and subsequent development of forebrain/midbrain at somite stage, while Otx5 expression would have already been specialized in epiphysis and eyes. Otx1 and Otx2 functions in anterior neuroectoderm and brain of the gnathostome ancestor would have been differentially maintained by Otx1 in a basal actinopterygian and by Otx2 in a basal sarcopterygian. Otx5 expression in head organizer and anterior mesendoderm seems to have been lost in the teleost lineage after divergence of bichir, and also from the amniotes after divergence of amphibians as independent events. Otx1 expression was lost from the organizer in the tetrapod lineage. In contrast, in a teleost ancestor prior to whole genome duplication, Otx1 and Otx2 would have both been expressed in the dorsal margin of blastoderm, embryonic shield, anterior mesendoderm, anterior neuroectoderm and forebrain/midbrain, at respective stages of head development. Subsequent whole genome duplication and the following genome changes would have caused different Otx paralogue usages in each teleost lineage. Lampreys also have three Otx paralogues; their sequences are highly diverged from gnathostome cognates, but their expression pattern is well related to those of skate Otx cognates.     

Conservation of key members in the course of the evolution of the insulin signaling pathway

Our understanding of the evolution of the insulin signaling pathway (ISP) is still incomplete. One intriguing unanswered question is the explanation of the emergence of the glucostatic role of insulin in mammals. To find out whether this is due to the development of new sets of signaling transduction elements in these organisms, or to the establishment of new interactions between pre-existing proteins, we rebuilt putative orthologous ISPs in 17 eukaryotic organisms. Then, we computed the conservation of orthologous ISPs at different levels, from sequence similarity of orthologous proteins to co-evolution of interacting domains. We found that the emergence of glucostatic role in mammals can neither be explained by the development of new sets of signaling elements, nor by the establishment of new interactions between pre-existing proteins. The comparison of orthologous IRS molecules indicates that only in mammals have they acquired their complete functionality as efficient recruiters of effector sub-pathways.     

渤海红鳍东方豚体内产毒细菌的微生态分布及B3B菌株的生物学特性

对我国渤海红鳍东方豚(Fugu rubripes)体内产毒细菌的微生态分布进行了考察.结果表明,渤海红鳍东方豚体内的各部位都普遍存在着产毒细菌,从其卵巢、肝脏等组织中分离到了19株可产强毒的菌株,对其中B3B菌株进行进一步研究鉴定,生理生化试验及16SrDNA序列测定结果表明,该菌属于芽孢杆菌属(Bacillus).同时,对其发酵产物进行分离精制后,通过小鼠试验、薄层层析试验及质谱分析,初步认定发酵产物中含有河豚毒素(Tetrodotoxin,TTX).     

陕西府谷晚中新世Acerorhinus属(奇蹄目,犀科)一新种

记述的 Acerorhinus fuguensis sp. nov是 Acerorhinus属中一个相当进步的种。府谷 保存完整的标本使我们对Acerorhinus的特征有了更全面且准确的认识。新种以强烈外展的鼓后突和头骨顶面在眶前的骤然收缩区别于塞瓦斯托波尔的A. zernowi和柴达木的A.tsaidamensis。新种下门齿内刃上翻的特点显示Acerorhinus属有向Chilotherium属演化的趋势。     

陕西府谷古鳄类一新属

本文详细记述了陕西府谷下三叠统上部二马营组底部的一古鳄类化石.据其骨骼形态特征拟订为古鳄亚目(Proterosuchia)、引鳄科(Erythrosuchidae)的一新属种:石拐古城鳄(Guchengosuchus shiguaiensis gen. et sp. nov.),同引鳄科内已知属的对比,表明新属古城鳄与武氏鳄 Vjushkovia 的关系最为接近.