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991.
992.
The peptide bond formation of alanine (ala), ala + glycine (gly), ala + diglycine (gly2), and ala + gly cyclic anhydride (cyc-gly2) in drying/wetting cycles at 80°C was studied. Silica, alumina, and representative smectites—montmorillonite and hectorite—were
used as catalysts, and the dependence of reaction yields on the available amount of water in the reaction systems was evaluated.
Silica and alumina catalyze the formation of oligopeptide mainly in temperature fluctuation experiments, whereas higher amounts
of water in the reaction system support clay-catalyzed reactions. Silica and alumina are much more efficient for amino acid
dimerization than clays. Whereas only 0.1% of ala oligomerized on hectorite and no reaction proceeded on montmorillonite,
about 0.9 and 3.8% alanine converted into its dimer and cyclic anhydride on silica and alumina, respectively. Clay minerals,
on the other hand, seem to more efficiently catalyze peptide chain elongation than amino acid dimerization. The reaction yields
of ala-gly-gly and gly-gly-ala from ala + gly2 and ala + cyc-gly2 reached about 0.3% on montmorillonite and 1.0% on hectorite. The possible mechanisms of these reactions and the relevance
of the results for prebiotic chemistry are discussed.
Received: 15 December 1996 / Accepted: 1 May 1997 相似文献
993.
Gerhard Schenk Roy Layfield Judith M. Candy Ronald G. Duggleby Peter F. Nixon 《Journal of molecular evolution》1997,44(5):552-572
Members of the transketolase group of thiamine-diphosphate-dependent enzymes from 17 different organisms including mammals,
yeast, bacteria, and plants have been used for phylogenetic reconstruction. Alignment of the amino acid and DNA sequences
for 21 transketolase enzymes and one putative transketolase reveals a number of highly conserved regions and invariant residues
that are of predicted importance for enzyme activity, based on the crystal structure of yeast transketolase. One particular
sequence of 36 residues has some similarities to the nucleotide-binding motif and we designate it as the transketolase motif.
We report further evidence that the recP protein from Streptococcus pneumoniae might be a transketolase and we list a number of invariant residues which might be involved in substrate binding. Phylogenies
derived from the nucleotide and the amino acid sequences by various methods show a conventional clustering for mammalian,
plant, and gram-negative bacterial transketolases. The branching order of the gram-positive bacteria could not be inferred
reliably. The formaldehyde transketolase (sometimes known as dihydroxyacetone synthase) of the yeast Hansenula polymorpha appears to be orthologous to the mammalian enzymes but paralogous to the other yeast transketolases. The occurrence of more
than one transketolase gene in some organisms is consistent with several gene duplications. The high degree of similarity
in functionally important residues and the fact that the same kinetic mechanism is applicable to all characterized transketolase
enzymes is consistent with the proposition that they are all derived from one common ancestral gene. Transketolase appears
to be an ancient enzyme that has evolved slowly and might serve as a model for a molecular clock, at least within the mammalian
clade.
Received: 13 September 1995 / Accepted: 14 November 1996 相似文献
994.
Molecular evolution of a portion of the mitochondrial 16S ribosomal gene region in scleractinian corals 总被引:1,自引:0,他引:1
Relationships among families and suborders of scleractinian corals are poorly understood because of difficulties 1) in making
inferences about the evolution of the morphological characters used in coral taxonomy and 2) in interpreting their 240-million-year
fossil record. Here we describe patterns of molecular evolution in a segment of the mitochondrial (mt) 16S ribosomal gene from taxa of 14 families of corals and the use of this gene segment in a phylogenetic analysis of relationships
within the order. We show that sequences obtained from scleractinians are homologous to other metazoan 16S ribosomal sequences
and fall into two distinct clades defined by size of the amplified gene product. Comparisons of sequences from the two clades
demonstrate that both sets of sequences are evolving under similar evolutionary constraints: they do not differ in nucleotide
composition, numbers of transition and transversion substitutions, spatial patterns of substitutions, or in rates of divergence.
The characteristics and patterns observed in these sequences as well as the secondary structures, are similar to those observed
in mt 16S ribosomal DNA sequences from other taxa. Phylogenetic analysis of these sequences shows that they are useful for evaluating
relationships within the order. The hypothesis generated from this analysis differs from traditional hypotheses for evolutionary
relationships among the Scleractinia and suggests that a reevaluation of evolutionary affinities in the order is needed.
Received: 4 September 1996 / Accepted: 7 April 1997 相似文献
995.
Alessandro Terrinoni Carmen Di Franco Patrizio Dimitri Nikolaj Junakovic 《Journal of molecular evolution》1997,45(2):145-153
The intragenomic location of the elements of the I, G, jockey, F, and Doc transposon families has been studied by the Southern
blot analysis, in 12 laboratory Drosophila melanogaster stocks. Elements located in euchromatin, heterochromatin, and on the Y chromosome are identified, and their stability has
been assessed by comparing the autoradiographs detected in different stocks and analysis of individual flies. Evidence is
shown suggesting that preferential location in euchromatin or heterochromatin and the distribution within heterochromatin
are distinctive of transposon families. Elements located in heterochromatin can be unstable. These results are discussed in
the context of the relationship between transposable elements and the host genome.
Received: 21 August 1996 / Accepted: 24 March 1997 相似文献
996.
We have investigated the phylogenetic relationships of monotremes and marsupials using nucleotide sequence data from the
neurotrophins; nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and neurotrophin-3 (NT-3). The study included
species representing monotremes, Australasian marsupials and placentals, as well as species representing birds, reptiles,
and fish. PCR was used to amplify fragments encoding parts of the neurotrophin genes from echidna, platypus, and eight marsupials
from four different orders. Phylogenetic trees were generated using parsimony analysis, and support for the different tree
structures was evaluated by bootstrapping. The analysis was performed with NGF, BDNF, or NT-3 sequence data used individually
as well as with the three neurotrophins in a combined matrix, thereby simultaneously considering phylogenetic information
from three separate genes. The results showed that the monotreme neurotrophin sequences associate to either therian or bird
neurotrophin sequences and suggests that the monotremes are not necessarily related closer to therians than to birds. Furthermore,
the results confirmed the present classification of four Australasian marsupial orders based on morphological characters,
and suggested a phylogenetic relationship where Dasyuromorphia is related closest to Peramelemorphia followed by Notoryctemorphia
and Diprotodontia. These studies show that sequence data from neurotrophins are well suited for phylogenetic analysis of mammals
and that neurotrophins can resolve basal relationships in the evolutionary tree.
Received: 27 January 1997 / Accepted: 20 March 1997 相似文献
997.
Contribution of Mutation and RNA Recombination to the Evolution of a Plant Pathogenic RNA 总被引:10,自引:0,他引:10
Miguel A. Aranda Aurora Fraile Joaquín Dopazo José M. Malpica Fernando García-Arenal 《Journal of molecular evolution》1997,44(1):81-88
The nucleotide sequence of 17 variants of the satellite RNA of cucumber mosaic virus (CMV-satRNA) isolated from field-infected
tomato plants in the springs of 1989, 1990, and 1991 was determined. The sequence of each of the 17 satRNAs was unique and
was between 334 and 340 nucleotides in length; 57 positions were polymorphic. There was much genetic divergence, ranging from
0.006 to 0.141 nucleotide substitutions per site for pairwise comparisons, and averaging 0.074 for any pair. When the polymorphic
positions were analyzed relative to a secondary structure model proposed for CMV-satRNAs, it was found that there were significantly
different numbers of changes in base-paired and non–base-paired positions, and that mutations that did not disrupt base pairing
were preferred at the putatively paired sites. This supports the concept that the need to maintain a functional structure
may limit genetic divergence of CMV-satRNA. Phylogenetic analyses showed that the 17 CMV-satRNA variants clustered into two
subgroups, I and II, and evolutionary lines proceeding by the sequential accumulation of mutations were apparent. Three satRNA
variants were outliers for these two phylogenetic groups. They were shown to be recombinants of subgroup I and II satRNAs
by calculating phylogenies for different molecular regions and by using Sawyer's test for gene conversion. At least two recombination
events were required to produce these three recombinant satRNAs. Thus, recombinants were found to be frequent (∼17%) in natural
populations of CMV-satRNA, and recombination may make an important contribution to the generation of new variants. To our
knowledge this is the first report of data allowing the frequency of recombinant isolates in natural populations of an RNA
replicon to be estimated.
Received: 14 May 1996 / Accepted: 17 July 1996 相似文献
998.
Ramin Amirnovin 《Journal of molecular evolution》1997,44(5):473-476
A computer program was used to test Wong's coevolution theory of the genetic code. The codon correlations between the codons
of biosynthetically related amino acids in the universal genetic code and in randomly generated genetic codes were compared.
It was determined that many codon correlations are also present within random genetic codes and that among the random codes
there are always several which have many more correlations than that found in the universal code. Although the number of correlations
depends on the choice of biosynthetically related amino acids, the probability of choosing a random genetic code with the
same or greater number of codon correlations as the universal genetic code was found to vary from 0.1% to 34% (with respect
to a fairly complete listing of related amino acids). Thus, Wong's theory that the genetic code arose by coevolution with
the biosynthetic pathways of amino acids, based on codon correlations between biosynthetically related amino acids, is statistical
in nature.
Received: 8 August 1996 / Accepted: 26 December 1996 相似文献
999.
Three loci in the genome of the white-footed mouse, Peromyscus leucopus, were examined for the presence or absence of orthologous copies of the retrovirus-like element mys using polymerase chain reaction. We examined these loci in 28 mice collected throughout the P. leucopus species range. Mys insertions were present in only one of the individuals examined at the mys-1 and mys-7 loci. Conversely, the mys-6 element was found in several individuals, but the presence of this element was limited to northern latitudes. Because the
long terminal repeats (LTRs) of a given element are expected to be identical at the time of retrotransposition into the genome,
and to accumulate changes over evolutionary time, within-element LTR sequence comparisons can be used to estimate the relative
age of insertions. Within-element LTR differences are greater in mys-6 than in mys-1 or mys-7. The LTRs from orthologous mys-6 elements of six mice were sequenced. The alignment revealed 13 of the 22 differences between the right and left LTRs that
were shared by all orthologous mys-6 sites, suggesting that relative to its time of insertion into the genome, mys-6 has only recently spread across the northern part of the species range.
Received: 23 January 1996 / Accepted: 24 April 1996 相似文献
1000.