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1.
Sergei L Kosakovsky Pond Sadie R Wisotsky Ananias Escalante Brittany Rife Magalis Steven Weaver 《Molecular biology and evolution》2021,38(3):1184
A number of evolutionary hypotheses can be tested by comparing selective pressures among sets of branches in a phylogenetic tree. When the question of interest is to identify specific sites within genes that may be evolving differently, a common approach is to perform separate analyses on subsets of sequences and compare parameter estimates in a post hoc fashion. This approach is statistically suboptimal and not always applicable. Here, we develop a simple extension of a popular fixed effects likelihood method in the context of codon-based evolutionary phylogenetic maximum likelihood testing, Contrast-FEL. It is suitable for identifying individual alignment sites where any among the sets of branches in a phylogenetic tree have detectably different ω ratios, indicative of different selective regimes. Using extensive simulations, we show that Contrast-FEL delivers good power, exceeding 90% for sufficiently large differences, while maintaining tight control over false positive rates, when the model is correctly specified. We conclude by applying Contrast-FEL to data from five previously published studies spanning a diverse range of organisms and focusing on different evolutionary questions. 相似文献
2.
Charles Romeo Naoko Moriwaki Kerry T. Yasunobu Irwin C. Gunsalus Hideo Koga 《Journal of Protein Chemistry》1987,6(3):253-261
The first 12 NH2-terminal amino acids of the Pseudomonas putida putidaredoxin reductase were shown to be Met-Asn-Ala-Asn-Asp-Asn-Val-Val-Ile-Val-Gly-Thr. Comparison of these data with the DNA sequence of the BamHI-HindIII 197-base fragment derived from the PstI 2.2-kb fragment obtained from the P. putida plasmid showed that the putidaredoxin reductase gene was downstream from the cytochrome P-450 gene and the intergenic region had the 24-nucleotide sequence TAAACACATGGGAGTGCGTGCTAA. The Shine-Dalgarno sequence GGAG was detected in this region. The initiating triplet for the reductase gene was GTG, which normally codes for valine, but in the initiating codon position codes for methionine. From the amino acid sequence and X-ray data comparisons with other flavoproteins, what appears to be the AMP binding region of the FAD can be recognized in the NH2-terminal portion of the reductase involving residues 5–35.This article was presented during the proceedings of the International Conference on Macromolecular Structure and Function, held at the National Defence Medical College, Tokorozawa, Japan, December 1985. 相似文献
3.
In order to clarify the mechanisms of selenocysteine incorporation into glutathione peroxidase, some evidence to show the in vitro conversion of phosphoseryl-tRNA to selenocysteyl-tRNA is reported. [3H]Phosphoseryl-tRNA was incubated in a reaction mixture composed of SeO2, glutathione and NADPH in the presence of selenium-transferase partially purified. Analyses of amino acids on the product tRNA showed that a part (4%) of [3H]phosphoseryl-tRNA was changed to [3H]selenocysteyl-tRNA. The conversion from seryl-tRNAsu or major seryl-tRNAIGA was not found. Selenium-transferase was essential for the conversion. [3H]Selenocysteine, liberated from the tRNA, was modified with iodoacetic acid. The product was confirmed to be carboxymethyl-selenocysteine by two-dimensional TLC. Selenocysteyl-tRNAsu should be used to synthesize glutathione peroxidase by co-translational mechanisms. 相似文献
4.
椭圆斜羽叶的解剖研究及斜羽叶的系统分类位置 总被引:2,自引:0,他引:2
本文根据对椭圆斜羽叶(Plagiozamites oblongifolius)钙质石化化石的研究,认为其主要特征如下:羽状复叶,叶肉无海绵组织和栅栏组织分化。羽片叶脉维管束外韧式,木质部外始式,与现代苏铁属叶脉特征相近。羽轴维管束为“U”形,外始式木质部、梯状纹孔管胞,与现代苏铁属的羽轴维管束相似。根据上述特征,目前可将斜羽叶属归入原始苏铁类植物。但是,如果斜羽叶的生殖器官同 Noeggerathia 一样,为异孢型孢子囊穗,则斜羽叶可能为一种与苏铁类起源有关的原裸子植物。 相似文献
5.
R. G. Beutel R. E. Roughley 《Journal of Zoological Systematics and Evolutionary Research》1988,26(5):380-400
Various characters of adult and larval members of Adephaga and Cupedidae were analyzed, and suggest that Gyrinidae are the sister-group of the remaining Adephaga, and are not closely related to the remaining aquatic Adephaga. The aquatic families Noteridae, Amphizoidae, Hygrobiidae and Dytiscidae seem to form a well founded monophyletic unit. The following characters are considered as synapomorphies of Adephaga excluding Gyrinidae: bifurcate condition of the muscle (= M.) tentoriopraementalis inferior, reduction of hypopharynx, strongly developed prosternal process, reduction in size and specialized modification of the ventral sclerite of the mesothorax, strongly developed mesofurcal arms, a high mesopleural ridge, globular mesocoxae restricted to rotatory movements, invaginated sternum VIII (coxostemum), the strongly curved base of the median lobe of the aedeagus, which articulates with the parameres, the rotated position of the aedeagus in repose, fusion of the larval clypeolabrum with the frons and reduction of the larval lacinia. Mesal shifting of M. episterno-coxalis prothoracis, and the fusion of the apical portions of the malpighian tubules of either side are considered as synapomorphies of Adephaga excluding Rhysodidae and Gyrinidae. Lateral reduction of the meta “sternal” transverse ridge and the presence of the subcubital setal binding patch of the hind wing are considered as synapomorphic characters of Trachypachidae, Noteridae, Amphizoidae, Hygrobiidae and Dytiscidae. We postulate that the metacoxal fusion occurred independently in gyrmids and the common ancestor of Trachypachidae, Noteridae, Amphizoidae, Hygrobiidae and Dytiscidae. Consequently we consider this character state as another synapomorphy of Trachypachidae and Hydradephaga excluding Haliplidae and Gyrinidae. The following characters are considered as synapomorphies of Noteridae, Amphizoidae, Hygrobiidae and Dytiscidae: Loss of tactile setae on the head capsule, metafurcal origin on the intercoxal wall, expansion of the intercoxal wall, elongation of the subcubital setal binding patch, loss of Mm. furca-coxale anterior and posterior, reduction of the larval abdominal segments IX and X, and the shifting of the uropmphi onto the ventral side of segment VIII. Presence of M. tentorio-mandibularis and M. stipitopalpalis intemus are certainly primitive features of adult gyrinids but the distribution of these character states among most members of Adephaga is yet unclear. Chemical defence gland constituents point towards a very isolated position of Gyrinidae. The old age of the group, documented by a larva found in upper Permian deposits, may support the hypothesis of a sister-group relation-ship between Gyrinidae and the remainder of Adephaga. 相似文献
6.
本文比较了金松(属)和杉科其他各属植物的核型,它的染色体数目(2n=20)和基数(x=10)较低,其核型最为对称。细胞学资料支持金松属从杉科分出另立金松科SciadopityaceaeHayata,它的系统位置则很可能比杉科来得原始。这也得到古植物学的支持。 相似文献
7.
J. W. M. Baars 《Aquatic Ecology》1988,22(2):147-155
The cold oligo-eurytherm diatomsCoscinodiscus concinnus W. Smith andRhizosolenia setigera Brightwell were cultured to determine their best competitive position by growth. Comparison of their generation times with those of other diatoms indicate that they reach this position between 6°C and 12°C. Both species grew between –1.5°C and about 20°C. The experiments indicate thatC. concinnus flowerings are possible in a deep water column, during periods of high light intensities. The simultaneous death of species in the upper layer is also caused by high light intensities.C. concinnus appeared in two morphological forms; the normal voluminous form, and a flatter form with a few intercalary bands only, filled with large oil-droplets. The latter appeared at 0°C and below, and at the upper temperature limit for growth of about 19°C–20°C. The separation of nov. spec. fromC. concinnus based on the absence or presence of a hyaline area and intercalary bands as identification characteristics should be reconsidered. 相似文献
8.
9.
Igor A. Krasheninnikov Anton A. Komar Ivan A. Adzhubei 《Journal of Protein Chemistry》1991,10(5):445-453
Examination of nascent globin peptides accumulatingin vitro during globin synthesis in rabbit reticulocyte lysates was carried out. A view was supported that nonrandom distribution of codons with different usage frequencies in mRNA may determine the messenger's translation kinetics. Regions of reduced translation of - and -globin polypeptide chains were localized, and the cotranslational protein-folding model suggested previously was substantiated. An active conjunction of synthesis and folding of proteins was proposed as one of the main destinations of a translation nonuniformity. 相似文献
10.
W. Junger 《Journal of comparative physiology. A, Neuroethology, sensory, neural, and behavioral physiology》1991,169(5):633-639
Waterstriders on ponds and creeks compensate for displacement caused by wind or water current with periodical jumps against the direction of drift. This behavior is mediated by visual stimuli.
相似文献
1. | Waterstriders are able to detect the direction and extent of their displacement on an artificial canal when visual cues are reduced to a single point-like light source above the upstream end of the canal. They adjust the frequency and direction of the compensatory jumps to keep their mean position on the canal constant. The mean amplitude of the jumps is constant and independent of the stream velocity. |
2. | During drift compensation the light spot is kept in the frontal visual field at a fixed angle of elevation. This set angle differs among individuals and can be changed with time. |
3. | The station-keeping ability can hardly be explained by a velocity servo system since there is no accumulating position error. The average compensatory movements are governed by a discontinuously working position servo. |
4. | When the light spot is switched off, a few jumps are still performed. Jumps, therefore, are not triggered individually by visual cues. Waterstriders must possess an endogenous jump-generator. |