Detecting and mapping repulsion-phase linkage in polyploids with polysomic inheritance

It has been suggested that ratios of coupling- to repulsion-phase linked markers can be used to distinguish between allopolyploids and autopolyploids, because repulsion-phase linkages are much more difficult to detect in autopolyploids with polysomic inheritance than allopolyploids with disomic inheritance. In this report, we analyze the segregation pattern of repulsion-phase linked markers in polyploids without complete preferential pairing. The observed repulsion-phase recombination fraction (R) in such polyploids is composed of a fraction due to crossing-over (R_c) and another fraction due to independent assortment (R_i). R_i is the minimum distance that can be detected between repulsion-phase linked markers. Because R_i is high in autopolyploids (0.3373, 0.4000, 0.4286 and 0.4444) for autopolyploids of 2n=4x, 6x, 8x and 10x), large population sizes are required to reliably detect repulsion linkages. In addition, the default linkage used in mapping-programs must be greater than the corresponding R_i to determine whether a polyploid is a true autopolyploid. Unfortunately, much lower default linkages than the R_is have been used in recent polyploid studies to determine polyploid type, and markers have been incorporated into polyploid maps based on the R values. Herein, we describe how mapping repulsion linkages can result in spurious results, and present methods to accurately detect the degree of preferential pairing in polyploids using repulsion linkage analysis. Received: 29 February 2000 / Accepted: 17 July 2000     

Shoot and compound leaf comparisons in eudicots: dynamic morphology as an alternative approach

Recent developmental studies suggest that the compound leaf is a more or less incompletely developed shoot. Instead of treating compound leaves and shoots as non-homologous, this interpretation draws a continuum between them. The present work considers the plant as a hierarchical series of units on which similar developmental processes are at work, and where each level (shoot, compound leaf, leaflet) is 'repeated' by the next higher level. Measurements related to the expression of developmental processes operating on leaves at the shoot level and on leaflets at the compound leaf level were used to determine if similar processes are at work at these different levels during early stages of organogenesis. Plants with compound leaves showing acropetal leaflet inception, representing a total of 16 species from ten eudicot families, were studied. Based on several types of quantitative analyses, there appears to be a continuum between so-called shoots, compound leaves and leaflets in the species studied. This perspective, qualified as dynamic morphology, both parallels and complements the classical interpretation.  © 2003 The Linnean Society of London, Botanical Journal of the Linnean Society, 2003, 143, 219−230.     

Novel microsatellite markers for Atlantic sturgeon (Acipenser oxyrinchus) population delineation and broodstock management

Twenty‐one new disomic, polymorphic microsatellite DNA markers were isolated in Atlantic sturgeon, Acipenser oxyrinchus oxyrinchus. These markers yielded a total of 220 alleles in a survey of 16 fish; two to 21 alleles/locus were observed. Each locus segregated in a Mendelian fashion when tested in a family, and a set of 14 of the loci distinguished between siblings and half‐siblings. Average observed heterozygosity ranged from 18.8 to 100.0%, and no linkage disequilibrium was detected. These loci should detect sufficient genetic diversity to allow kinship analysis for broodstock management, gene marking for stocking assessment and life history studies, and delineation of fine‐scale population structure.     

Population divergence of genetic (co)variance matrices in a subdivided plant species,Brassica cretica

Abstract The present study of Brassica cretica had two objectives. First, we compared estimates of population structure (Q_st) for seven phenotypic characters with the corresponding measures for allozyme markers (F_st) to evaluate the supposition that genetic drift is a major determinant of the evolutionary history of this species. Secondly, we compared the genetic (co)variance ( G ) matrices of five populations to examine whether a long history of population isolation is associated with large, consistent differences in the genetic (co)variance structure. Differences between estimates of F_st and Q_st were too small to be declared significant, indicating that stochastic processes have played a major role in the structuring of quantitative variation in this species. Comparison of populations using the common principal component (CPC) method rejected the hypothesis that the G matrices differed by a simple constant of proportionality: most of the variation involved principal component structure rather than the eigenvalues. However, there was strong evidence for proportionality in comparisons using the method of percentage reduction in mean‐square error (MSE), at least when characters with unusually high (co)variance estimates were included in the analyses. Although the CPC and MSE methods provide different, but complementary, views of G matrix variation, we urge caution in the use of proportionality as an indicator of whether genetic drift is responsible for divergence in the G matrix.     

Latitudinal differentiation in the effects of the toxic dinoflagellate Alexandrium spp. on the feeding and reproduction of populations of the copepod Acartia hudsonica

Blooms of the dinoflagellate Alexandrium spp. increase in their frequency, toxicity and historical presence with increasing latitude from New Jersey (USA) to the Gaspé peninsula (Canada). Biogeographic variation in these blooms results in differential exposure of geographically separate copepod populations to toxic Alexandrium. We hypothesize that the ability of copepods to feed and reproduce on toxic Alexandrium should be higher in copepods from regions that are frequently exposed to toxic Alexandrium blooms. We tested this hypothesis with factorial common environment experiments in which female adults of the copepod Acartia hudsonica from five separate populations ranging from New Jersey to New Brunswick were fed toxic and non-toxic strains of Alexandrium, and the non-toxic flagellate Tetraselmis sp. Consistent with the hypothesis, when fed toxic Alexandrium we observed significantly higher ingestion and egg production rates in the copepods historically exposed to toxic Alexandrium blooms relative to copepods from regions in which Alexandrium is rare or absent. Such differences among copepod populations were not observed when copepods were fed non-toxic Alexandrium or Tetraselmis sp. These results were also supported by assays in which copepods from populations both historically exposed and naïve to toxic Alexandrium blooms were fed mixtures of toxic Alexandrium and Tetraselmis sp. Two-week long experiments demonstrated that when copepods from populations naïve to toxic Alexandrium were fed a toxic strain of Alexandrium they failed to acclimate, such that their ingestion rates remained low throughout the entire two-week period. The differences observed among populations suggest that local adaptation of populations of A. hudsonica from Massachusetts (USA) to New Brunswick (Canada) has occurred, such that some populations are resistant to toxic Alexandrium.     

Antibiotic biosynthesis: from natural to unnatural compounds

The evolution of the field of biosynthesis from the unravelling of the mode of formation of natural products to the use of such knowledge to create new compounds is reviewed using examples from the author's laboratory. The discussion focuses on the mode of operation of type II (spore pigment PKS) and type I (rifamycin PKS) polyketide synthases and their diversion to generate unnatural products, and on the genetics and biochemistry of deoxysugar formation in granaticin biosynthesis as a prerequisite to combinatorial enzymatic synthesis of unusual glycosides. Journal of Industrial Microbiology & Biotechnology (2001) 27, 183–194. Received 21 September 1999/ Accepted in revised form 13 September 2000     

植物逆境胁迫耐受性功能基因组研究进展

为了更加高效地利用基因工程技术提高植物对逆境胁迫的耐受性,需要在全基因组水平上对植物逆境胁迫耐受性的复杂机制进行整合性研究.植物逆境胁迫耐受性功能基因组的研究可概括为：利用胁迫特异性的表达序列标签(EST)及cDNA微阵列（或基因芯片）技术筛选与胁迫相关的候选基因,然后利用反向遗传学等技术对候选基因的功能进行研究,利用酵母双杂交、正向遗传学等技术对基因及基因产物间的相互关系进行研究.通过这些研究可以全面地了解植物对胁迫（渗透、干旱、极端温度）响应的复杂机制和相互作用以及相应的信号转导途径,从而为更加高效地利用基因工程技术提高植物对逆境胁迫的耐受性奠定基础.     

Conservation genetics: beyond the maintenance of marker diversity

One of the major problems faced by conservation biologists is the allocation of scarce resources to an overwhelmingly large number of species in need of preservation efforts. Both demographic and genetic information have been brought to bear on this problem; however, the role of information obtained from genetic markers has largely been limited to the characterization of gene frequencies and patterns of diversity. While the genetic consequences of rarity may be a contributing factor to endangerment, it is widely recognized that demographic factors often may be more important. Because patterns of genetic marker variation are influenced by the same demographic factors of interest to the conservation biologist, it is possible to extract useful demographic information from genetic marker data. Such an approach may be productive for determining plant mating systems, inbreeding depression, effective population size, and metapopulation structure. In many cases, however, data consisting only of marker frequencies are inadequate for these purposes. Development of genealogical based analytical methods coupled with studies of DNA sequence variation within and among populations is likely to yield the most information on demographic processes from genetic marker data. Indeed, in some cases it may be the only means of obtaining information on the long-term demographic properties that may be most useful for determining the future prospects of a species of interest.     

Time course of color induction in the honeybee

Color induction in the honeybee is investigated in color discrimination experiments. An individual bee walks in a dark arena and is trained to a self-luminant stimulus presented from below. In the dual-choice tests the dark background is replaced by a colored induction stimulus. Choice behavior is recorded by TV camera and analyzed by computer. Successive color induction is separated from simultaneous induction by analysis of the walking paths. Only successive color induction occurs. Simultaneous effects are not observed. That is a stimulus acts as a color inducing stimulus only when the bee crosses this stimulus. Thus, the color perceived by a given eye region is found to be dependent on the viewing history, but not on the stimuli presented simultaneously on neighboring parts of the retina. Color induction in the honeybee described in terms of selective sensitivity decrease (adaptation) does not explain all behavioral effects induced by the stimulus. The time course of successive color induction is calculated from the exposure times to the induction stimulus and from the choice behavior. The data suggest that color induction is complete after a few seconds. Photoreceptor adaptation is sufficient to explain the observed time course.