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81.
Gaurav D. Moghe David E. Hufnagel Haibao Tang Yongli Xiao Ian Dworkin Christopher D. Town Jeffrey K. Conner Shin-Han Shiu 《The Plant cell》2014,26(5):1925-1937
Polyploidization events are frequent among flowering plants, and the duplicate genes produced via such events contribute significantly to plant evolution. We sequenced the genome of wild radish (Raphanus raphanistrum), a Brassicaceae species that experienced a whole-genome triplication event prior to diverging from Brassica rapa. Despite substantial gene gains in these two species compared with Arabidopsis thaliana and Arabidopsis lyrata, ∼70% of the orthologous groups experienced gene losses in R. raphanistrum and B. rapa, with most of the losses occurring prior to their divergence. The retained duplicates show substantial divergence in sequence and expression. Based on comparison of A. thaliana and R. raphanistrum ortholog floral expression levels, retained radish duplicates diverged primarily via maintenance of ancestral expression level in one copy and reduction of expression level in others. In addition, retained duplicates differed significantly from genes that reverted to singleton state in function, sequence composition, expression patterns, network connectivity, and rates of evolution. Using these properties, we established a statistical learning model for predicting whether a duplicate would be retained postpolyploidization. Overall, our study provides new insights into the processes of plant duplicate loss, retention, and functional divergence and highlights the need for further understanding factors controlling duplicate gene fate. 相似文献
82.
83.
Michael A. Statnick Lisa S. Beavers Laura J. Conner Helena Corominola Dwayne Johnson Craig D. Hammond Ronit Rafaeloff-Phail Thomas Seng Todd M. Suter James P. Sluka Eric Ravussin Robert A. Gadski Jose F. Caro 《Experimental diabetes research》2000,1(2):81-88
We have screened a subtracted cDNA library in
order to identify differentially expressed genes in
omental adipose tissue of human patients with
Type 2 diabetes. One clone (#1738) showed a marked
reduction in omental adipose tissue from patients
with Type 2 diabetes. Sequencing and BLAST analysis
revealed clone #1738 was the adipocyte-specific
secreted protein gene apM1 (synonyms ACRP30,
AdipoQ, GBP28). Consistent with the murine orthologue,
apM1 mRNA was expressed in cultured
human adipocytes and not in preadipocytes.
Using RT-PCR we confirmed that apM1 mRNA
levels were significantly reduced in omental adipose
tissue of obese patients with Type 2 diabetes compared
with lean and obese normoglycemic subjects.
Although less pronounced, apM1 mRNA levels
were reduced in subcutaneous adipose tissue of
Type 2 diabetic patients. Whereas the biological
function of apM1 is presently unknown, the tissue
specific expression, structural similarities to TNFα
and the dysregulated expression observed in obese
Type 2 diabetic patients suggest that this factor
may play a role in the pathogenesis of insulin resistance
and Type 2 diabetes. 相似文献
84.
Characterization of the novel protein kinase activity present in the R1 subunit of herpes simplex virus ribonucleotide reductase.
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We have compared the protein kinase activities of the R1 subunits from herpes simplex virus types 1 (HSV-1) and 2 (HSV-2) ribonucleotide reductase following expression in Escherichia coli. Autophosphorylation activity was observed when kinase assays were performed with immunoprecipitated R1 or proteins purified to homogeneity, and the activity was stimulated by the basic protein protamine. Transphosphorylation of histones or calmodulin by purified or immunoprecipitated HSV-1 and HSV-2 R1 was not observed, and our results suggest that the activities of these two proteins are similar. We further characterized the protein kinase activity of HSV-1 R1 by producing insertion and deletion mutants constructed with a plasmid expressing R1 amino acids 1 to 449. C-terminal deletion analysis identified the catalytic core of the enzyme as comprising residues 1 to 292, and this polypeptide will be useful for structural determinations by X-ray crystallography. Insertion of a 4-amino-acid sequence at sites within the protein kinase domain identified regions essential for activity; insertions at residues 22 and 112 completely inactivated activity, and an insertion at residue 136 reduced activity sixfold. Similar insertions at residues 257, 262, 292, and 343 had no effect on activity. The ATP analog 5'-fluorosulfonylbenzoyladenosine, which covalently modifies conventional eukaryotic kinases at an essential lysine residue within the active site, did label HSV R1, but this labelling occurred outside the N-terminal domain. These data indicate that the HSV R1 kinase is novel and distinct from other eukaryotic protein kinases. 相似文献
85.
Inferring species phylogenies is an important part of understanding molecular evolution. Even so, it is well known that an accurate phylogenetic tree reconstruction for a single gene does not always necessarily correspond to the species phylogeny. One commonly accepted strategy to cope with this problem is to sequence many genes; the way in which to analyze the resulting collection of genes is somewhat more contentious. Supermatrix and supertree methods can be used, although these can suppress conflicts arising from true differences in the gene trees caused by processes such as lineage sorting, horizontal gene transfer, or gene duplication and loss. In 2004, Huson et al. (IEEE/ACM Trans. Comput. Biol. Bioinformatics 1:151-158) presented the Z-closure method that can circumvent this problem by generating a supernetwork as opposed to a supertree. Here we present an alternative way for generating supernetworks called Q-imputation. In particular, we describe a method that uses quartet information to add missing taxa into gene trees. The resulting trees are subsequently used to generate consensus networks, networks that generalize strict and majority-rule consensus trees. Through simulations and application to real data sets, we compare Q-imputation to the matrix representation with parsimony (MRP) supertree method and Z-closure, and demonstrate that it provides a useful complementary tool. 相似文献
86.
S. V. Raikar R. H. Braun C. Bryant A. J. Conner M. C. Christey 《Plant biotechnology reports》2008,2(3):171-177
This paper reports an improved protocol for isolation, culture and regeneration of Lotus corniculatus protoplasts. A range of parameters which influence the isolation of L. corniculatus protoplasts were investigated, i.e., enzyme combination, tissue type, incubation period and osmolarity level. Of three enzyme
combinations tested, the highest yield of viable protoplasts was achieved with the combination of 2% Cellulase Onozuka RS,
1% Macerozyme R-10, 0.5% Driselase and 0.2% Pectolyase. The use of etiolated cotyledon tissue as a source for protoplast isolation
proved vital in obtaining substantially higher protoplast yields than previously reported. Culture of the protoplasts on a
nitrocellulose membrane with a Lolium perenne feeder-layer on the sequential series of PEL medium was highly successful in the formation of micro-colonies with plating
efficiencies 3–10 times greater than previous studies. Shoot regeneration and intact plants were achieved from 46% of protoplast-derived
cell colonies. 相似文献
87.
Ecological genetics of an induced plant defense against herbivores: additive genetic variance and costs of phenotypic plasticity 总被引:10,自引:0,他引:10
Agrawal AA Conner JK Johnson MT Wallsgrove R 《Evolution; international journal of organic evolution》2002,56(11):2206-2213
Abstract.— Adaptive phenotypic plasticity in chemical defense is thought to play a major role in plant-herbivore interactions. We investigated genetic variation for inducibility of defensive traits in wild radish plants and asked if the evolution of induction is constrained by costs of phenotypic plasticity. In a greenhouse experiment using paternal half-sibling families, we show additive genetic variation for plasticity in glucosinolate concentration. Genetic variation for glucosinolates was not detected in undamaged plants, but was significant following herbivory by a specialist herbivore, Pieris rapae . On average, damaged plants had 55% higher concentrations of glucosinolates compared to controls. In addition, we found significant narrow-sense heritabilities for leaf size, trichome number, flowering phenology, and lifetime fruit production. In a second experiment, we found evidence of genetic variation in induced plant resistance to P. rapae . Although overall there was little evidence for genetic correlations between the defensive and life-history traits we measured, we show that more plastic families had lower fitness than less plastic families in the absence of herbivory (i.e., evidence for genetic costs of plasticity). Thus, there is genetic variation for induction of defense in wild radish, and the evolution of inducibility may be constrained by costs of plasticity. 相似文献
88.
Mean times of onset for calling in Haploa clymene (Brown), Spilosoma virginica (Fabricius), Pareuchaetes insulata (Walker), Cycnia tenera (Hübner), and Euchaetes egle (Drury) advance to earlier times in the photoperiod at lower temperatures. Temperature has no apparent effect on the calling period in Pyrrharctia isabella (J. E. Smith), Spilosoma congrua Walker, and Apantesis nais (Drury). The relationship between the temperatures experienced by each of these species as adults and the response of their calling rhythms to temperature is discussed. Lights-on can elicit calling behaviour in C. tenera, although it is not an absolute requirement because calling eventually begins when lights-on is delayed 4 h and calling also begins prior to lights-on at lower temperatures. Calling periods lengthen in C. tenera and S. congrua when the scotophase is prolonged and in S. congrua after the onset of a lower photophase light intensity (40 lux), suggesting that a higher photophase light intensity (450 lux) inhibits calling and thus causes its termination.
Résumé Aux faibles températures le moment moyen de déclenchement de l'appel apparaît plus tôt au cours de la photopériode chez Haploa clymene Brown, Spilosoma virginica Fab., Pareuchaetes insulata Walk., Cycnia tenera Hübn. et Euchaetes egle Drury. La température n'a apparemment pas d'effet sur le moment où l'appel débute chez Pyrrharctica isabella J.E. Smith, S. congrua Walk. et Apantesis nais Drury.L'analyse porte sur les relations entre les températures subies par les adultes de ces espèces et leurs réactions d'appel aux différentes températures. L'apparition de la lumière peut induire le comportement d'appel chez C. tenera, bien que ce ne soit pas indispensable puisqu'il peut éventuellement commencer à des températures plus basses avant l'illumination quand celle-ci est retardée de 4 heures. Les périodes d'appel sont prolongées avec la scotophase chez C. tenera et S. congrua, et même après l'apparition d'une photophase à faible intensité lumineuse (40 lux), l'appel de S. congrua se poursuit, ce qui suggère que les photophases à intensité lumineuse plus élevée (450 lux) inhibent l'appel et ainsi en provoquent la fin.相似文献
89.