Patterns of amplified restriction fragment polymorphism in the germination of Festuca hallii seeds

2010 ◽  
Vol 20 (3) ◽  
pp. 153-161
Author(s):  
Jie Qiu ◽  
Yuguang Bai ◽  
Yong-Bi Fu ◽  
John F. Wilmshurst

AbstractTiming of seed germination influences plant lifetime fitness and can affect the ability of plant populations to colonize and persist in changing environments. However, the genetic variation of the seed germination response remains poorly understood. The amplified restriction fragment polymorphism (AFLP) technique was applied to characterize the genetic variation of germinated seeds collected from three Festuca hallii populations in the Canadian prairie. Three subpopulations with early, intermediate and late germination were identified from each population, based on germination tests at 10, 15 and 20°C in controlled growth chambers. Three AFLP primer pairs were employed to screen a total of 540 assayed seedling samples and 188 polymorphic AFLP bands were scored for each sample. None of the assayed AFLP bands were significantly associated with seed germination, but marked differences in estimates of mean band frequency were observed for various groups of germinating seeds under different test temperatures. Partitioning of the total AFLP variation showed that 5.9% AFLP variation was present among seeds of the three populations, 0.3% among seeds of three germination subpopulations, and 0.5% among seeds grouped for germination temperature. Genetic differentiation was significant among 27 groups of seeds representing population, germination timing and test temperature. Subpopulations with early and intermediate germination shared similar genetic backgrounds and were genetically differentiated from the late germination subpopulation. These results indicate that seed genotypes respond slightly differently to environmental variation, resulting in significant but weak genetic differentiation in the germination of F. hallii seeds. Implications for plant establishment and fescue restoration are discussed.

2007 ◽  
Vol 17 (1) ◽  
pp. 33-43 ◽  
Author(s):  
Kent J. Bradford ◽  
Daniel Côme ◽  
Françoise Corbineau

AbstractSeeds vary widely in the sensitivity of germination to oxygen (O2) partial pressure, depending upon the species, temperature, dormancy state and physiological status of the seeds. Most analyses of the O2 sensitivity of germination have focused on final germination percentages and estimated the O2 percentage in air that is required to reduce germination to a given percentage (usually 50%). In contrast, we have applied a population-based threshold model utilizing time courses of germination to quantify three parameters related to seed germination sensitivity to O2 availability: the median base (or threshold) O2 percentage, the standard deviation of O2 thresholds among seeds in the population, and an oxygen–time constant that relates O2 percentage to germination timing. The model fits germination responses accurately across a wide range of O2 concentrations. The response to O2 was logarithmic in all cases, with the O2 percentage required for 50% germination ranging from 21% to as low as 0.005%, depending upon the species, the temperature and the seed dormancy level. Modelling indicated that some seeds can adapt to low O2 percentages and shift their thresholds to lower values over time. Lower temperatures decreased the minimum O2 threshold, as did after-ripening. Seed priming generally reduced the oxygen–time constant and increased the standard deviation of germination responses, but had relatively little effect on the O2 sensitivity per se. The population-based threshold model can be used to quantify the O2 sensitivity of seed germination and to predict germination rates and percentages when O2 availability is limiting.


2007 ◽  
Vol 85 (5) ◽  
pp. 484-492 ◽  
Author(s):  
Jie Qiu ◽  
Yong-Bi Fu ◽  
Yuguang Bai ◽  
John F. Wilmshurst

Plains rough fescue ( Festuca hallii (Vasey) Piper) is a dominant native grass species in the Fescue Prairie region of North America that has undergone dramatic range reduction in the past century. Little is known about the genetic diversity of this species. The amplified restriction fragment polymorphism (AFLP) technique was applied to assess the comparative genetic diversity of six plains rough fescue populations in Manitoba and Saskatchewan and their corresponding seed collections. Three AFLP primer pairs were employed to screen 529 samples, representing about 30 samples each of reproductive tiller, vegetative tiller, and seed collected from each population. A total of 330 polymorphic AFLP bands were scored for each sample; their occurrence frequencies ranged from 0.01 to 0.99 and averaged around 0.47. Analysis of molecular variance revealed more than 90% of the total AFLP variation resided within natural populations (reproductive and vegetative tillers) and within seed samples. Four populations sampled from protected areas appear to have relatively lower within-population variation than two unprotected populations. Only 0.2% AFLP difference was revealed among the three tissue types examined. The tiller samples revealed slightly larger among-population variation than the seed samples and captured substantial associations of AFLP variation with population geographic distances. These findings are important for germplasm sampling for ex situ conservation, are useful for germplasm development for pasture seeding, and should facilitate the management of fragmented fescue populations.


Author(s):  
Rui Zang ◽  
Ying Zhao ◽  
Kangdi Guo ◽  
Kunqi Hong ◽  
Huijun Xi ◽  
...  

AbstractBitter gourd wilt caused by Fusarium oxysporum f. sp. momordicae (FOM) is a devastating crop disease in China. A total of 173 isolates characteristic of typical Fusarium oxysporum with abundant microconidia and macroconidia on white or ruby colonies were obtained from diseased plant tissues. BLASTn analysis of the rDNA-ITS of the isolates showed 99% identity with F. oxysporum species. Among the tested isolates, three were infectious toward tower gourd and five were pathogenic to bottle gourd. However, all of the isolates were pathogenic to bitter gourd. For genetic differences analysis, 40 ISSR primers were screened and 11 primers were used for ISSR-PCR amplification. In total, 127 loci were detected, of which 76 were polymorphic at a rate of 59.84%. POPGENE analysis showed that Nei’s gene diversity index (H) and Shannon’s information index (I) were 0.09 and 0.15, respectively, which indicated that the genetic diversity of the 173 isolates was low. The coefficient of gene differentiation (Gst = 0.33 > 0.15) indicated that genetic differentiation was mainly among populations. The strength of gene flow (Nm = 1.01 > 1.0) was weak, indicating that the population differentiation caused by gene drift was blocked to some degree. The dendrogram based on ISSR markers showed that the nine geographical populations were clustered into two groups at the threshold of genetic similarity coefficient of 0.96. The Shandong and Henan populations were clustered into Group I, while the Guangdong, Hainan, Guangxi, Fujian, Jiangxi, and Hubei populations constituted Group II. Results of the genetic variation analysis showed that the Hunan and Guangxi populations had the highest degree of genetic differentiation, while the Hubei population had the lowest genetic differentiation. Our findings enrich the knowledge of the genetic variation characteristics of FOM populations with the goal of developing effective disease-management programs and resistance breeding programs.


Circulation ◽  
2012 ◽  
Vol 125 (suppl_10) ◽  
Author(s):  
Catherine O Johnson ◽  
Rozenn N Lemaitre ◽  
Nona Sotoodehnia ◽  
Barbara McKnight ◽  
Kenneth M Rice ◽  
...  

Background: Reperfusion following ischemia due to sudden cardiac arrest (SCA) is necessary for survival, but results in additional injury to affected tissues. Regulation of apoptosis has been shown to be important in determining the extent of reperfusion injury. Caspases (CASP) are essential enzymes in the apoptotic cascade and we therefore hypothesized that genetic variation in these enzymes might influence cardiac and brain resuscitation after SCA. To test this, we examined three genes (CASP2, CASP3, CASP9) in a population-based study of SCA survival. Methods: Subjects (mean age 67, 80% male, of European descent) were out-of-hospital SCA patients found in ventricular fibrillation (VF) and attended by paramedics in King County, WA (n=1614). To investigate cardiac resuscitation, we compared subjects who survived to hospital admission (n=827) with those who did not (n=787); for brain resuscitation, we compared subjects who survived to hospital discharge (n=448) with those who did not (n=1166). Associations of 19 SNPs were examined using logistic regression comparing each additional copy of the minor allele. Based on a priori hypotheses, models were adjusted for: age; gender; time from 911 call to arrival of emergency medical services; whether the event was witnessed; occurred in public; and whether bystander CPR was administered. We used within-gene permutation tests to adjust p-values for multiple comparisons. Results: Two SNPs in CASP3 were associated with SCA survival. The A allele of rs4647688 (minor allele frequency (MAF) 0.20) was associated with lower rates of survival to hospital admission (OR (95% CI), adjusted p-value: 0.78 (0.65, 0.93), p =0.043). The T allele of rs2705897 (MAF 0.26) was associated with a higher rate of survival to hospital admission (1.27 (1.07, 1.51), p =0.049). These two SNPs are in almost complete linkage equilibrium (r 2 =0.091). No SNPs in CASP3 were significantly associated with survival to hospital discharge, and no SNPs in CASP2 or CASP9 were significantly associated with either outcome. Conclusions: CASP3 variants are associated with SCA survival in this population. Further work is needed to explore the effect of these variants on regulation of apoptosis during reperfusion following VF arrest, and to replicate these findings in other populations.


2017 ◽  
Vol 38 (11) ◽  
pp. 1454-1463 ◽  
Author(s):  
Laurens Wiel ◽  
Hanka Venselaar ◽  
Joris A. Veltman ◽  
Gert Vriend ◽  
Christian Gilissen

Author(s):  
Thien Minh Nguyen ◽  
Tien Thi My Pham

The agronomic values of this population have been evaluated in the field experiments based on their phenotypic performance of agronomic traits, but the genetic variability of this population needs to be evaluated via techniques based on genetic material - DNA. In this study, the genetic variability in the investigated population of 71 hybrids and their parents was evaluated by RAPD technique, using eight selected arbitrarily primers; Genetic parameters and dendrogram expressing the genetic relationships among the investigated population were analyzed by GenALEx 6.1, Popgene 1.31 and NTSYSpc 2.1 softwares. Eight primers were used to generate the amplify products on each individual in the investigated population. From 74 genotypes, a total of 109 fragments were generated, among which, there were 89 polymorphic bands representing 81.65% with an average of 11 polymorphic bands/primer. Genetic similarity coefficient among the investigated population, based on DICE coefficient, ranged from 0.560 (LH05/0822 and PB260) to 0.991 (LH05/0781 and LH05/0841) with an average of 0,796, meaning that the genetic distance among ranged from 0.009 to 0.440 with an average of 0.231. The Shannon index and mean heterozygosity values were 0.328 and 0,176, respectively. This indicated that the progenies of the two investigated crosses possessed a relatively high range of genetic variability. The analysis of molecular variance (AMOVA) showed that genetic variation within population represented 62%, while genetic variation among two different crosses contributes 38% to the total genetic variability. Dendrogram based on DICE’s genetic similarity using UPGMA method showed that the hybrids divide into two major genetic groups (0.75), but the crosses were scattered independently of the hybrid.


2008 ◽  
Vol 10 (3) ◽  
Author(s):  
Elizabeth M Azzato ◽  
Kristy E Driver ◽  
Fabienne Lesueur ◽  
Mitul Shah ◽  
David Greenberg ◽  
...  

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