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61.
Oswaldo Keith Okamoto Ana Carolina SR Carvalho Luciana C Marti Ricardo Z Vêncio Carlos A Moreira-Filho 《Cancer cell international》2007,7(1):11
Background
Uncovering the molecular mechanism underlying expansion of hematopoietic stem and progenitor cells is critical to extend current therapeutic applications and to understand how its deregulation relates to leukemia. The characterization of genes commonly relevant to stem/progenitor cell expansion and tumor development should facilitate the identification of novel therapeutic targets in cancer. 相似文献62.
John Gray Michael Bevan Thomas Brutnell C. Robin Buell Karen Cone Sarah Hake David Jackson Elizabeth Kellogg Carolyn Lawrence Susan McCouch Todd Mockler Stephen Moose Andrew Paterson Thomas Peterson Daniel Rokshar Glaucia Mendes Souza Nathan Springer Nils Stein Marja Timmermans Guo-Liang Wang Erich Grotewold 《Plant physiology》2009,149(1):4-6
63.
Not just a grain of rice: the quest for quality 总被引:7,自引:0,他引:7
64.
J E Spindel H Begum D Akdemir B Collard E Redo?a J-L Jannink S McCouch 《Heredity》2016,116(4):395-408
To address the multiple challenges to food security posed by global climate change, population growth and rising incomes, plant breeders are developing new crop varieties that can enhance both agricultural productivity and environmental sustainability. Current breeding practices, however, are unable to keep pace with demand. Genomic selection (GS) is a new technique that helps accelerate the rate of genetic gain in breeding by using whole-genome data to predict the breeding value of offspring. Here, we describe a new GS model that combines RR-BLUP with markers fit as fixed effects selected from the results of a genome-wide-association study (GWAS) on the RR-BLUP training data. We term this model GS + de novo GWAS. In a breeding population of tropical rice, GS + de novo GWAS outperformed six other models for a variety of traits and in multiple environments. On the basis of these results, we propose an extended, two-part breeding design that can be used to efficiently integrate novel variation into elite breeding populations, thus expanding genetic diversity and enhancing the potential for sustainable productivity gains. 相似文献
65.
66.
Locating QTL for osmotic adjustment and dehydration tolerance in rice 总被引:31,自引:3,他引:28
Lilley J.M.; Ludlow M. M.; McCouch S.R.; O'Toole J.C. 《Journal of experimental botany》1996,47(9):1427-1436
Research was conducted to identify and map quantitative traitloci (QTL) associated with dehydration tolerance and osmoticadjustment of rice. Osmotic adjustment capacity and lethal osmoticpotential were determined for 52 recombinant inbred lines grownin a controlled environment under conditions of a slowly developedstress. The lines were from a cross between an Indica cultivar,Co39, of lowland adaptation and a Japonica cultivar, Moroberekan,a traditional upland cultivar. The QTL analysis was conductedusing single marker analysis (ANOVA) and interval analysis (Mapmaker/QTL).The measurements obtained and the QTL identified were comparedto root traits and leaf rolling scores measured on the samelines. One major locus was associated with osmotic adjustment. Theputative locus for osmotic adjustment may be homoeologous witha single recessive gene previously identified for the same traitin wheat. The putative osmotic adjustment locus and two of thefive QTL associated with dehydration tolerance were close tochromosomal regions associated with root morphology. In thispopulation, osmotic adjustment and dehydration tolerance werenegatively associated with root morphological characters associatedwith drought avoidance. High osmotic adjustment and dehydrationtolerance were associated with Co39 alleles and extensive rootsystems were associated with Moroberekan alleles. To combinehigh osmotic adjustment with extensive root systems, the linkagebetween these traits will need to be broken. Alternatively,if the target environment is a lowland environment with onlybrief water deficit periods, selection for drought tolerancecharacteristics without consideration of the root system maybe most appropriate. Key words: Drought, rice, osmotic adjustment, dehydration tolerance, molecular markers, QTL, breeding 相似文献
67.
Schatz Michael C Maron Lyza G Stein Joshua C Wences Alejandro Hernandez Gurtowski James Biggers Eric Lee Hayan Kramer Melissa Antoniou Eric Ghiban Elena Wright Mark H Chia Jer-ming Ware Doreen McCouch Susan R McCombie W Richard 《Genome biology》2014,15(11):1-16
The use of high throughput genome-sequencing technologies has uncovered a large extent of structural variation in eukaryotic genomes that makes important contributions to genomic diversity and phenotypic variation. When the genomes of different strains of a given organism are compared, whole genome resequencing data are typically aligned to an established reference sequence. However, when the reference differs in significant structural ways from the individuals under study, the analysis is often incomplete or inaccurate. Here, we use rice as a model to demonstrate how improvements in sequencing and assembly technology allow rapid and inexpensive de novo assembly of next generation sequence data into high-quality assemblies that can be directly compared using whole genome alignment to provide an unbiased assessment. Using this approach, we are able to accurately assess the ‘pan-genome’ of three divergent rice varieties and document several megabases of each genome absent in the other two. Many of the genome-specific loci are annotated to contain genes, reflecting the potential for new biological properties that would be missed by standard reference-mapping approaches. We further provide a detailed analysis of several loci associated with agriculturally important traits, including the S5 hybrid sterility locus, the Sub1 submergence tolerance locus, the LRK gene cluster associated with improved yield, and the Pup1 cluster associated with phosphorus deficiency, illustrating the utility of our approach for biological discovery. All of the data and software are openly available to support further breeding and functional studies of rice and other species. 相似文献
68.
Simple sequence length polymorphism analysis was carried out to reveal microsatellite variation and to clarify the phylogenetic relationships among A-genome species of rice. Total DNA from 29 cultivars (23 Oryza sativa and 6 O. glaberrima) and 30 accessions of wild A-genome species (12 O. rufipogon, 5 O. glumaepatula, 2 O. longistaminata, 6 O. meridionalis, and 5 O. barthii) was used as a template for PCR to detect 24 nuclear and 10 chloroplast microsatellite loci. Microsatellite allelic diversity was examined based on amplified banding patterns. Microsatellites amplified clearly in all 59 accessions, with an average of 18.4 alleles per locus. The polymorphism information content (PIC) value ranged from 0.85 to 0.94, with an average of 0.89. At the species level, high average PIC values were observed in O. sativa (0.79) and O. rufipogon (0.80). For chloroplast microsatellites, the average number of alleles per locus and the average PIC value were 2.9 and 0.38, respectively. While the magnitude of diversity was much greater for nuclear microsatellites than for chloroplast microsatellites, they showed parallel patterns of differentiation for each taxonomic group. Using the ratio of common alleles (estimated as size of amplified fragments) as a similarity index, the average percentages of common microsatellite alleles were calculated between taxa. For both nuclear and chloroplast microsatellites, O. sativa showed the highest similarity values to O. rufipogon, and O. glaberrima was most similar to O. barthii. These data support previous evidence that these cultivars originated from the corresponding wild ancestral species. 相似文献
69.
S. E. Harrington H. F. J. Bligh W. D. Park C. A. Jones S. R. McCouch 《TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik》1997,94(5):564-568
The chromosomal position of Starch Branching Enzyme III (SBEIII) was determined via linkage to RFLP markers on an existing
molecular map of rice (Oryza sativa L.). A cDNA of 890 bp was generated using specific PCR primers designed from available SBEIII sequence data and used as a
probe in Southern analysis. The SBEIII cDNA hybridized to multiple restriction fragments, but these fragments mapped to a
single locus on rice chromosome 2, flanked by CDO718 and RG157. The detection of a multiple-copy hybridization pattern suggested the possibility of a tandemly duplicated gene at this
locus. The map location of orthologous SBE genes in maize, wheat, and oat were predicted based on previously published genetic
studies and comparative maps of the grass family.
Received : 5 August 1996 / Accepted : 13 September 1996 相似文献
70.
E. Huq S. Harrington M. A. Hossain F. Wen S. R. McCouch T. K. Hodges 《TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik》1999,98(5):815-824
The anaerobic fermentation pathway is thought to play an important role under flooding conditions. The pyruvate decarboxylase
2 (pdc2) gene that encodes the first enzyme of this pathway has been cloned and characterized from rice. This gene has an open reading
frame that putatively encodes a 603 amino-acid-residue protein with a molecular mass of 64 kDa. pdc2 has five introns dispersed throughout the coding region, which is also true for rice pdc1. Although the length of these introns in rice pdc2 are different from those in rice pdc1, they are located in exactly the same positions based on the deduced amino-acid sequences. The temporal and spatial expression
patterns of pdc1 and pdc2 show that pdc2 is induced to a higher level during the early period (1.5–12 h) of anoxia than pdc1, which is induced more after longer time periods (24–72 h) of anoxia in both shoots and roots. The map positions of the three
pdc genes have also been determined. Rice pdc1 is located on chromosome 5 between BCD454A and RZ67, pdc2 is located on chromosome 3 between RZ329 and RZ313, and pdc3 is mapped on chromosome 7 distal to RG351.
Received: 19 May 1998 / Accepted: 29 September 1998 相似文献