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排序方式: 共有94条查询结果,搜索用时 15 毫秒
1.
A highly conserved nuclear gene for low-level phylogenetics: elongation factor-1 alpha recovers morphology-based tree for heliothine moths 总被引:8,自引:2,他引:6
Cho S; Mitchell A; Regier JC; Mitter C; Poole RW; Friedlander TP; Zhao S 《Molecular biology and evolution》1995,12(4):650-656
Molecular systematists need increased access to nuclear genes. Highly
conserved, low copy number protein-encoding nuclear genes have attractive
features for phylogenetic inference but have heretofore been applied mostly
to very ancient divergences. By virtue of their synonymous substitutions,
such genes should contain a wealth of information about lower-level
taxonomic relationships as well, with the advantage that amino acid
conservatism makes both alignment and primer definition straightforward. We
tested this postulate for the elongation factor-1 alpha (EF-1 alpha) gene
in the noctuid moth subfamily Heliothinae, which has probably diversified
since the middle Tertiary. We sequenced 1,240 bp in 18 taxa representing
heliothine groupings strongly supported by previous morphological and
allozyme studies. The single most parsimonious gene tree and the
neighbor-joining tree for all nucleotides show almost complete concordance
with the morphological tree. Homoplasy and pairwise divergence levels are
low, transition/transversion ratios are high, and phylogenetic information
is spread evenly across gene regions. The EF-1 alpha gene and presumably
other highly conserved genes hold much promise for phylogenetics of
Tertiary age eukaryote groups.
相似文献
2.
Susan Zappala Jonathan R. Helliwell Saoirse R. Tracy Stefan Mairhofer Craig J. Sturrock Tony Pridmore Malcolm Bennett Sacha J. Mooney 《PloS one》2013,8(6)
X-ray Computed Tomography (CT) is a non-destructive imaging technique originally designed for diagnostic medicine, which was adopted for rhizosphere and soil science applications in the early 1980s. X-ray CT enables researchers to simultaneously visualise and quantify the heterogeneous soil matrix of mineral grains, organic matter, air-filled pores and water-filled pores. Additionally, X-ray CT allows visualisation of plant roots in situ without the need for traditional invasive methods such as root washing. However, one routinely unreported aspect of X-ray CT is the potential effect of X-ray dose on the soil-borne microorganisms and plants in rhizosphere investigations. Here we aimed to i) highlight the need for more consistent reporting of X-ray CT parameters for dose to sample, ii) to provide an overview of previously reported impacts of X-rays on soil microorganisms and plant roots and iii) present new data investigating the response of plant roots and microbial communities to X-ray exposure. Fewer than 5% of the 126 publications included in the literature review contained sufficient information to calculate dose and only 2.4% of the publications explicitly state an estimate of dose received by each sample. We conducted a study involving rice roots growing in soil, observing no significant difference between the numbers of root tips, root volume and total root length in scanned versus unscanned samples. In parallel, a soil microbe experiment scanning samples over a total of 24 weeks observed no significant difference between the scanned and unscanned microbial biomass values. We conclude from the literature review and our own experiments that X-ray CT does not impact plant growth or soil microbial populations when employing a low level of dose (<30 Gy). However, the call for higher throughput X-ray CT means that doses that biological samples receive are likely to increase and thus should be closely monitored. 相似文献
3.
AV Shevchenko IG Budzanivska TP Shevchenko VP Polischuk D Spaar 《Archives Of Phytopathology And Plant Protection》2013,46(2):139-146
The work was focused on the investigation of possible dependencies between the development of viral infection in plants and the presence of high heavy metal concentrations in soil. Field experiments have been conducted in order to study the development of systemic tobacco mosaic virus (TMV) infection in Lycopersicon esculentum L. cv. Miliana plants under effect of separate salts of heavy metals Cu, Zn and Pb deposited in soil. As it is shown, simultaneous effect of viral infection and heavy metals in tenfold maximum permissible concentration leads to decrease of total chlorophyll content in experiment plants mainly due to the degradation of chlorophyll a. The reduction of chlorophyll concentration under the combined influence of both stress factors was more serious comparing to the separate effect of every single factor. Plants' treatment with toxic concentrations of lead and zinc leaded to slight delay in the development of systemic TMV infection together with more than twofold increase of virus content in plants that may be an evidence of synergism between these heavy metal's and virus' effects. Contrary, copper although decreased total chlorophyll content but showed protective properties and significantly reduced amount of virus in plants. 相似文献
4.
Susan Zappala Stefan Mairhofer Saoirse Tracy Craig J. Sturrock Malcolm Bennett Tony Pridmore Sacha J. Mooney 《Plant and Soil》2013,370(1-2):35-45
Aims
A commonly accepted challenge when visualising plant roots in X-ray micro Computed Tomography (μCT) images is the similar X-ray attenuation of plant roots and soil phases. Soil moisture content remains a recognised, yet currently uncharacterised source of segmentation error. This work sought to quantify the effect of soil moisture content on the ability to segment roots from soil in μCT images.Methods
Rice (Oryza sativa) plants grown in contrasting soils (loamy sand and clay loam) were μCT scanned daily for nine days whilst drying from saturation. Root volumes were segmented from μCT images and compared with volumes derived by root washing.Results
At saturation the overlapping attenuation values of root material, water-filled soil pores and soil organic matter significantly hindered segmentation. However, in dry soil (ca. six days of drying post-saturation) the air-filled pores increased image noise adjacent to roots and impeded accurate visualisation of root material. The root volume was most accurately segmented at field capacity.Conclusions
Root volumes can be accurately segmented from μCT images of undisturbed soil without compromising the growth requirements of the plant providing soil moisture content is kept at field capacity. We propose all future studies in this area should consider the error associated with scanning at different soil moisture contents. 相似文献5.
Discovering lactic acid bacteria by genomics 总被引:25,自引:0,他引:25
Klaenhammer T Altermann E Arigoni F Bolotin A Breidt F Broadbent J Cano R Chaillou S Deutscher J Gasson M van de Guchte M Guzzo J Hartke A Hawkins T Hols P Hutkins R Kleerebezem M Kok J Kuipers O Lubbers M Maguin E McKay L Mills D Nauta A Overbeek R Pel H Pridmore D Saier M van Sinderen D Sorokin A Steele J O'Sullivan D de Vos W Weimer B Zagorec M Siezen R 《Antonie van Leeuwenhoek》2002,82(1-4):29-58
This review summarizes a collection of lactic acid bacteria that are now undergoing genomic sequencing and analysis. Summaries are presented on twenty different species, with each overview discussing the organisms fundamental and practical significance, nvironmental habitat, and its role in fermentation, bioprocessing, or probiotics. For those projects where genome sequence data were available by March 2002, summaries include a listing of key statistics and interesting genomic features. These efforts will revolutionize our molecular view of Gram–positive bacteria, as up to 15 genomes from the low GC content lactic acid bacteria are expected to be available in the public domain by the end of 2003. Our collective view of the lactic acid bacteria will be fundamentally changed as we rediscover the relationships and capabilities of these organisms through genomics. 相似文献
6.
SUMMARY: The original RootTrace tool has proved successful in measuring primary root lengths across time series image data. Biologists have shown interest in using the tool to address further problems, namely counting lateral roots to use as parameters in screening studies, and measuring highly curved roots. To address this, the software has been extended to count emerged lateral roots, and the tracking model extended so that strongly curved and agravitropic roots can be now be recovered. Here, we describe the novel image analysis algorithms and user interface implemented within the RootTrace framework to handle such situations and evaluate the results. AVAILABILITY: The software is open source and available from http://sourceforge.net/projects/roottrace. 相似文献
7.
8.
9.
Brant Pridmore 《Biology & philosophy》2008,23(4):579-586
Genes in Development is a collection of 13 stimulating essays on "post genomic" approaches to the concept of the gene. At
the risk of caricaturing some complex balances, the contributors tend to be skeptical about genetic determinism, the central
dogma of molecular biology, reductionism, genes as programs and the concept of the gene as a DNA sequence. They tend to like
emergent properties, complexity theory, the parity thesis for developmental resources, developmental systems theory, and membranes.
But within this broad weltanschauung the essays in Genes in Development vary widely in their interests and emphases––from
the history of twentieth century genetics to the social and ethical issues raised by contemporary genetics––which makes for
an attractive and valuable collection. 相似文献
10.
Peter A. Pridmore Thomas H. Rich Pat Vickers-Rich Petr P. Gambaryan 《Journal of Mammalian Evolution》2005,12(3-4):359-378
A partial right humerus has been recovered from the Early Cretaceous (Albian) Eumeralla Formation at Dinosaur Cove in south-eastern
Australia. General morphology, size and the presence of a single epicondylar foramen (the entepicondylar) suggest that the
bone is from a mammal or an advanced therapsid reptile. The humerus is similar in size, shape and torsion to the equivalent
bone of extant and late Neogene echidnas (Tachyglossidae) but, contrary to the situation in extant monotremes, in which the
ulna and radius articulate with a single, largely bulbous condyle, it bears a shallow, pulley-shaped (i.e. trochlear-form)
ulnar articulation that is confluent ventro-laterally with the bulbous radial condyle. This form of ulnar articulation distinguishes
this bone from the humeri of most advanced therapsids and members of several major groups of Mesozoic mammals, which have
a condylar ulnar articulation, but parallels the situation found in therian mammals and in some other lineages of Mesozoic
mammals. As in extant monotremes the distal humerus is greatly expanded transversely and humeral torsion is strong. Transverse
expansion of the distal humerus is evident in the humeri of the fossorial docodont Haldanodon, highly-fossorial talpids and some clearly fossorial dicynodont therapsids, but the fossil shows greatest overall similarity
to extant monotremes and it is possible that the peculiar elbow joint of extant monotremes evolved from a condition approximating
that of the fossil. On the basis of comparisons with Mesozoic and Cainozoic mammalian taxa in which humeral morphology is
known, the Dinosaur Cove humerus is tentatively attributed to a monotreme. However, several apparently primitive features
of the bone exclude the animal concerned from the extant families Tachyglossidae and Ornithorhynchidae and suggest that, if
it is a monotreme, it is a stem-group monotreme. Whatever, the animal's true affinity, the gross morphology of its humerus
indicates considerable capacity for rotation-thrust digging. 相似文献