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A consensus linkage map of barley 总被引:5,自引:0,他引:5
Peter Langridge Angelo Karakousis Nick Collins Jodie Kretschmer Sue Manning 《Molecular breeding : new strategies in plant improvement》1995,1(4):389-395
A consensus linkage map of the barley genome was constructed. The map is based on six doubled haploid and one F2 population. The mapping data for three of the doubled haploid populations was obtained via the GrainGenes database. To allow merger of the maps, only RFLP markers that produce a single scorable band were included. Although this reduced the available markers by about half, the resultant map contains a total of 587 markers including 87 of known function. As expected, gene order was highly conserved between maps and all but two discrepancies were found in closely linked markers and are likely to result from the small population sizes used for some maps. The consensus map allows the rapid localisation of markers between published maps and should facilitate the selection of markers for high-density mapping in defined regions. 相似文献
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Nielsen J; Peixoto AA; Piccin A; Costa R; Kyriacou CP; Chalmers D 《Molecular biology and evolution》1994,11(6):839-853
The region of the clock gene period (per) that encodes a repetitive tract
of threonine-glycine (Thr-Gly) pairs has been compared between Dipteran
species both within and outside the Drosophilidae. All the non-
Drosophilidae sequences in this region are short and present a remarkably
stable picture compared to the Drosophilidae, in which the region is much
larger and extremely variable, both in size and composition. The
accelerated evolution in the repetitive region of the Drosophilidae appears
to be mainly due to an expansion of two ancestral repeats, one encoding a
Thr-Gly dipeptide and the other a pentapeptide rich in serine, glycine, and
asparagine or threonine. In some drosophilids the expansion involves a
duplication of the pentapeptide sequence, but in Drosophila pseudoobscura
both the dipeptide and the pentapeptide repeats are present in larger
numbers. In the nondrosophilids, however, the pentapeptide sequence is
represented by one copy and the dipeptide by two copies. These observations
fulfill some of the predictions of recent theoretical models that have
simulated the evolution of repetitive sequences.
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On the basis of distinct ecological and morphological characters, the European Barbus taxa have been clustered in two groups: a fluvio-lacustrine and a rheophilic or strictly riverine one. These two groups (or ecophenotypes) were recognized in different parts of Europe, and formed either a species assemblage ( Barbus barbus group) or a polytypic species ( Barbus meridionalis ). The hypothesis was that species of the same group belong to the same phylogenetic lineage (clade) and are the result of the same transcontinental colonization event. The analysis, using allozyme markers, of 10 taxa of the genus Barbus from France, Italy, Greece, the Czech Republic and Slovakia, showed that the taxa thought to belong to the fluvio-lacustrine and the rheophilic groups are not monophyletic. The results suggest that probably in each sub-region, the founding taxon has diverged independently to form species of two different ecophenotypes, one occupying the upstream rivers and the other the lowland rivers. Accordingly, Barbus species groups represent clusters of morphologically convergent taxa living in equivalent biotopes. 相似文献
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Roepman P de Koning E van Leenen D de Weger RA Kummer JA Slootweg PJ Holstege FC 《Genome biology》2006,7(12):R117-12
Background
Metastasis, the process whereby cancer cells spread, is in part caused by an incompletely understood interplay between cancer cells and the surrounding stroma. Gene expression studies typically analyze samples containing tumor cells and stroma. Samples with less than 50% tumor cells are generally excluded, thereby reducing the number of patients that can benefit from clinically relevant signatures.Results
For a head-neck squamous cell carcinoma (HNSCC) primary tumor expression signature that predicts the presence of lymph node metastasis, we first show that reduced proportions of tumor cells results in decreased predictive accuracy. To determine the influence of stroma on the predictive signature and to investigate the interaction between tumor cells and the surrounding microenvironment, we used laser capture microdissection to divide the metastatic signature into six distinct components based on tumor versus stroma expression and on association with the metastatic phenotype. A strikingly skewed distribution of metastasis associated genes is revealed.Conclusion
Dissection of predictive signatures into different components has implications for design of expression signatures and for our understanding of the metastatic process. Compared to primary tumors that have not formed metastases, primary HNSCC tumors that have metastasized are characterized by predominant down-regulation of tumor cell specific genes and exclusive up-regulation of stromal cell specific genes. The skewed distribution agrees with poor signature performance on samples that contain less than 50% tumor cells. Methods for reducing tumor composition bias that lead to greater predictive accuracy and an increase in the types of samples that can be included are presented. 相似文献9.
The use of molecular markers to improve crops depends on the availability of rapid and efficient DNA extraction methods. Here
we describe a simple and inexpensive method to isolate plant DNA suitable for RFLP, AFLP, and simple sequence repeat (SSR)
analysis. This procedure uses stainless steel ball bearings to grind 16 samples simultaneously using a high-speed flask shaker.
The method used in routine laboratory exercises yields 120–144 DNA extractions in a day by a single person at a cost of $0.60
(AUD) per sample, doubling the throughput of conventional methods. 相似文献
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