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Lee WK Jeong N Indrasumunar A Gresshoff PM Jeong SC 《TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik》2011,122(5):875-884
The rj1 mutation of soybean is a simple recessive allele in a single line that arose as a spontaneous mutation in a population; it
exhibits non-nodulation with virtually all Bradyrhizobium and Sinorhizobium strains. Here, we described fine genetic and physical mapping of the rj1 locus on soybean chromosome 2. The initial mapping of the rj1 locus using public markers indicated that A343.p2, a sequence-based marker that contains sequence similar to a part of the
LjNFR1 gene regulating nodule formation as a member of lysin motif-type receptor-like kinase (LYK) family, maps very close to or
cosegregates with the rj1 locus. The sequence of A343.p2 is 100% identical to parts of two BAC clone sequences (GM_WBb0002O19 and GM_WBb098N11) that
contain three members of the LYK family. We analyzed the sequence contig (262 kbp) of the two BAC clones by resequencing and subsequent fine genetic and physical
mapping. The results indicated that rj1 is located in a gene-rich region with a recombination rate of 120 kbp/cM: several fold higher than the genome average. Among
the LYK genes, NFR1α is most likely the gene encoded at the Rj1 locus. The non-nodulating rj1 allele was created by a single base-pair deletion that results in a premature stop codon. Taken together, the fine genetic
and physical mapping of the Rj1-residing chromosomal region, combined with the unexpected observation of a putative recombination hotspot, allowed us to
demonstrate that the Rj1 locus most likely encodes the NFR1α gene. 相似文献
23.
Dirk Meyer John K Hodges Dones Rinaldi Ambang Wijaya Christian Roos Kurt Hammerschmidt 《BMC evolutionary biology》2012,12(1):16
Background
The degree to which loud-calls in nonhuman primates can be used as a reliable taxonomic tool is the subject of ongoing debate. A recent study on crested gibbons showed that these species can be well distinguished by their songs; even at the population level the authors found reliable differences. Although there are some further studies on geographic and phylogenetic differences in loud-calls of nonhuman primate species, it is unclear to what extent loud-calls of other species have a similar close relation between acoustic structure, phylogenetic relatedness and geographic distance. We therefore conducted a field survey in 19 locations on Sumatra, Java and the Mentawai islands to record male loud-calls of wild surilis (Presbytis), a genus of Asian leaf monkeys (Colobinae) with disputed taxanomy, and compared the structure of their loud-calls with a molecular genetic analysis. 相似文献24.
Akira Ooyagi Daniel F. Mokodongan Javier Montenegro Ixchel F. Mandagi Noriyuki Koizumi Yoshiyasu Machida Nobuyuki Inomata Sergey V. Shedko Arief A. Hutama Renny K. Hadiaty Kazunori Yamahira 《Ichthyological Research》2018,65(1):115-126
Many straits in the Japanese archipelago have been proposed as biogeographical boundaries, but there is disagreement regarding their importance as historic barriers against dispersal of terrestrial and freshwater taxa. Mitochondrial DNA haplotype and phylogenetic analyses of Lefua nikkonis, a primary freshwater fish inhabiting northern Japan and descendent from Siberia, revealed that the species is genetically structured within its geographic range, but that two major haplotypes are widely distributed across the Ishikari Lowland of Hokkaido Island as well as across the Tsugaru Strait between Hokkaido and Honshu Islands, two well-known biogeographical boundaries of northern Japan. The two major haplotypes were separated from each other by only one mutational step, and many other haplotypes, including those endemic to the region south of these barriers, have diverged from the major haplotypes, suggesting rapid range expansion and local differentiation. Divergence-time estimates, based on vicariance of the Honshu endemic congener L. echigonia via uplift of the Central Highlands, demonstrated that the southward dispersal of L. nikkonis from Hokkaido Island to Honshu Island occurred less than 0.08–0.19 Mya, suggesting that a land bridge emerged at the Tsugaru Strait during the Riss glaciation. Given that other freshwater taxa crossed the strait earlier (during the Middle Pleistocene), it is likely that land bridges in the strait have repeatedly emerged. The fact that L. nikkonis invaded only the northern part of Honshu, and that many other freshwater species also have the limit of their distribution ranges in this area as well, indicates that a faunal transition zone might persist even without the Tsugaru Strait. Thus, straits and lowlands in northern Japan are likely to have been less important as dispersal barriers to freshwater taxa than is currently thought. 相似文献
25.
MOTIVATION: The false discovery rate (fdr) is a key tool for statistical assessment of differential expression (DE) in microarray studies. Overall control of the fdr alone, however, is not sufficient to address the problem of genes with small variance, which generally suffer from a disproportionally high rate of false positives. It is desirable to have an fdr-controlling procedure that automatically accounts for gene variability. METHODS: We generalize the local fdr as a function of multiple statistics, combining a common test statistic for assessing DE with its standard error information. We use a non-parametric mixture model for DE and non-DE genes to describe the observed multi-dimensional statistics, and estimate the distribution for non-DE genes via the permutation method. We demonstrate this fdr2d approach for simulated and real microarray data. RESULTS: The fdr2d allows objective assessment of DE as a function of gene variability. We also show that the fdr2d performs better than commonly used modified test statistics. AVAILABILITY: An R-package OCplus containing functions for computing fdr2d() and other operating characteristics of microarray data is available at http://www.meb.ki.se/~yudpaw. 相似文献
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27.
Poonam?Yadav Ravdeep?Kaur Mukesh?Kumar?Kanwar Renu?BhardwajEmail author Geetika?Sirhindi Leonard?Wijaya M.?N.?Alyemeni Parvaiz?AhmadEmail author 《Journal of Plant Growth Regulation》2018,37(2):575-590
The transition metal elements like copper act as double-edged sword for living cells. Cu, a redox active metal, is essential for various biological processes, but at higher concentrations it leads to toxicity by inducing production of reactive oxygen species (ROS). Thus, the objective of the present study was to investigate the effects of exogenously applied castasterone on oxidative stress markers and redox homeostasis managers in Brassica juncea plants subject to copper stress for 30 days. Copper-exposed plants showed accumulation of free radicals (H2O2 and superoxide anion) and lipid peroxidation. However, the exogenous treatment of seeds via the seed soaking method with different concentrations of castasterone reduced H2O2 production, superoxide anion radical content, and lipid peroxidation, thus indicating improved detoxification of ROS. Enzyme activity was increased by 19.19% for guaiacol peroxidase, 16.20% for superoxide dismutase, 35.74% for glutathione peroxidase, 27.58% for dehydroascorbate reductase, and 42.75% for ascorbate peroxidase, with castasterone pre-soaking under copper stress. The levels of non-enzymatic antioxidants were also increased with castasterone pre-treatment under copper stress. It may be concluded that castasterone treatment enhanced redox homeostasis managers in addition to increased levels of osmoprotectants. 相似文献
28.
Hussain Afzal Ali Shafaqat Rizwan Muhammad Zia ur Rehman Muhammad Hameed Amjad Hafeez Farhan Alamri Saud A. Alyemeni Mohammed Nasser Wijaya Leonard 《Journal of Plant Growth Regulation》2018,37(4):1413-1422
Journal of Plant Growth Regulation - Chromium (Cr) is a very toxic heavy metal present in agricultural soils. Soils contaminated with Cr are the major source of Cr entrance into the food chain. The... 相似文献
29.
Halobacteria require 20–25% NaCl for optimal growth and lyse when the salt concentration falls below 10%. The response of
Haloferax mediterranei cells to low concentrations of NaCl (< 20%) in the medium was studied. The cells adapted to and grew in concentrations of
NaCl as low as 10% and survived in concentrations lower than 5%. The cells synthesised a red pigment, bacterioruberin, in
response to stress caused by a low concentration of NaCl (< 20%).
Received: 3 January 1997 / Accepted: 18 April 1997 相似文献
30.