Flowering time and transcriptome variation in Capsella bursa-pastoris (Brassicaceae)

? Flowering is a major developmental transition and its timing in relation to environmental conditions is of crucial importance to plant fitness. Understanding the genetic basis of flowering time variation is important to determining how plants adapt locally. ? Here, we investigated flowering time variation of Capsella bursa-pastoris collected from different latitudes in China. We also used a digital gene expression (DGE) system to generate partial gene expression profiles for 12 selected samples. ? We found that flowering time was highly variable and most strongly correlated with day length and winter temperature. Significant differences in gene expression between early- and late-flowering samples were detected for 72 candidate genes for flowering time. Genes related to circadian rhythms were significantly overrepresented among the differentially expressed genes. ? Our data suggest that circadian rhythms and circadian clock genes play an important role in the evolution of flowering time, and C. bursa-pastoris plants exhibit expression differences for candidate genes likely to affect flowering time across the broad range of environments they face in China.     

Origin of the quiescent center in the root of Capsella bursa-pastoris (L.) Medik

The origin of the quiescent center in the embryonic radicle of Capsella bursa-pastoris was investigated by in-situ hybridization to cellular polyadenylic-acid-containing RNA using [³H]polyuridylic acid as a probe. In the globular embryo, autoradiographic silver grains were localized in all cells of the presumptive root apex except in the hypophysis. As the inner cell formed by a transverse division of the hypophysis cut off new cells toward the central procambial cylinder of the embryo, these cells remained characteristically unlabeled, in contrast to the labeled cells of the rest of the embryo. In the embryonic radicles of mature seeds and of seedlings, cells derived from the hypophysis appeared as a nonmeristematic, unlabeled, hemispherical group, bounded by the procambium to the inside and the root epidermis to the outside. When root tips excised from 2-d-old seedlings were incubated in [methyl-³H]thymidine, sectioned, and autoradiographed, cells derived from the inner cell of the hypophysis were found to be unlabeled, thus showing that they constitute the specific cells of the quiescent center. These results present evidence for the single-cell origin of the quiescent center in an angiosperm root and a role for the hypophysis in it.Abbreviations poly(A)⁺RNA polyadenylicacid-containing RNA - [³H]poly(U) [³H]polyuridylic acid - QC quiescent center This work was supported in part by National Science Foundation grants PCM-7902898 and DCB-8709092.     

L-lactate dehydrogenase from leaves of Capsella bursa-pastoris (L.) Med.

By ammonium sulfate fractionation and gel filtration an enzyme preparation which catalyzed NAD⁺-dependent L-lactate oxidation (10^-4 kat kg^-1 protein), as well as NADH-dependent pyruvate reduction (10^-3 kat kg^-1 protein), was obtained from leaves of Capsella bursa-pastoris. This lactate dehydrogenase activity was not due to an unspecific activity of either glycolate oxidase, glycolate dehydrogenase, hydroxypyruvate reductase, alcohol dehydrogenase, or a malate oxidizing enzyme. These enzymes could be separated from the protein displaying lactate dehydrogenase activity by gel filtration and electrophoresis and distinguished from it by their known properties. The enzyme under consideration does not oxidize D-lactate, and reduces pyruvate to L-lactate (the configuration of which was determined using highly specific animal L-lactate dehydrogenase). Based on these results the studied Capsella leaf enzyme is classified as L-lactate dehydrogenase (EC 1.1.1.27). It has a K_m value of 0.25 mmol l^-1 (pH 7.0, 0.3 mmol l^-1 NADH) for pyruvate and of 13 mmol l^-1 (pH 7.8, 3 mmol l^-1 NAD⁺) for L-lactate. Lactate dehydrogenase activity was also detected in the leaves of several other plants.Abbreviation FMN flavin adenine mononucleotide     

On the origin of the widespread self-compatible allotetraploid Capsella bursa-pastoris (Brassicaceae)

Polyploidy, or whole-genome duplication, is a common speciation mechanism in plants. An important barrier to polyploid establishment is a lack of compatible mates. Because self-compatibility alleviates this problem, it has long been hypothesized that there should be an association between polyploidy and self-compatibility (SC), but empirical support for this prediction is mixed. Here, we investigate whether the molecular makeup of the Brassicaceae self-incompatibility (SI) system, and specifically dominance relationships among S-haplotypes mediated by small RNAs, could facilitate loss of SI in allopolyploid crucifers. We focus on the allotetraploid species Capsella bursa-pastoris, which formed ~300 kya by hybridization and whole-genome duplication involving progenitors from the lineages of Capsella orientalis and Capsella grandiflora. We conduct targeted long-read sequencing to assemble and analyze eight full-length S-locus haplotypes, representing both homeologous subgenomes of C. bursa-pastoris. We further analyze small RNA (sRNA) sequencing data from flower buds to identify candidate dominance modifiers. We find that C. orientalis-derived S-haplotypes of C. bursa-pastoris harbor truncated versions of the male SI specificity gene SCR and express a conserved sRNA-based candidate dominance modifier with a target in the C. grandiflora-derived S-haplotype. These results suggest that pollen-level dominance may have facilitated loss of SI in C. bursa-pastoris. Finally, we demonstrate that spontaneous somatic tetraploidization after a wide cross between C. orientalis and C. grandiflora can result in production of self-compatible tetraploid offspring. We discuss the implications of this finding on the mode of formation of this widespread weed.Subject terms: Evolution, Polyploidy in plants, Plant evolution, Haplotypes     

Phenotypic plasticity of Capsella bursa-pastoris (Brassicaceae) and its effect on fitness in response to temperature and soil moisture

Capsella bursa-pastoris is one of the most common plants on earth. Although phenotypic plasticity of ecologically important traits possibly contributes to its wide geographic range, little is known about the plasticity of C. bursa-pastoris and its effects on its fitness. In a laboratory, we assessed the phenotypic plasticity in response to two representative climatic conditions: temperature and soil moisture. In addition, we quantitatively evaluated the relationship between phenotypic plasticity and fruit production. Most measured morphological and physiological traits exhibited plastic responses to temperature and fitness based on fruit production was maintained across temperatures. In contrast, no plasticity to soil moisture was detected, and plants produced fewer fruits in dry soil. Selection analysis revealed that the plasticity of the flowering time and the water-use efficiency had positive effects on fruit production over the tested temperature regime. These experimental results suggest that phenotypic plasticity probably enables C. bursa-pastoris to cope with heterogeneous temperature environments and thereby probably contributes to its wide geographic range.     

Differential expression of genes important for adaptation in Capsella bursa-pastoris (Brassicaceae)

Understanding the genetic basis of natural variation is of primary interest for evolutionary studies of adaptation. In Capsella bursa-pastoris, a close relative of Arabidopsis (Arabidopsis thaliana), variation in flowering time is correlated with latitude, suggestive of an adaptation to photoperiod. To identify pathways regulating natural flowering time variation in C. bursa-pastoris, we have studied gene expression differences between two pairs of early- and late-flowering C. bursa-pastoris accessions and compared their response to vernalization. Using Arabidopsis microarrays, we found a large number of significant differences in gene expression between flowering ecotypes. The key flowering time gene FLOWERING LOCUS C (FLC) was not differentially expressed prior to vernalization. This result is in contrast to those in Arabidopsis, where most natural flowering time variation acts through FLC. However, the gibberellin and photoperiodic flowering pathways were significantly enriched for gene expression differences between early- and late-flowering C. bursa-pastoris. Gibberellin biosynthesis genes were down-regulated in late-flowering accessions, whereas circadian core genes in the photoperiodic pathway were differentially expressed between early- and late-flowering accessions. Detailed time-series experiments clearly demonstrated that the diurnal rhythm of CIRCADIAN CLOCK-ASSOCIATED1 (CCA1) and TIMING OF CAB EXPRESSION1 (TOC1) expression differed between flowering ecotypes, both under constant light and long-day conditions. Differential expression of flowering time genes was biologically validated in an independent pair of flowering ecotypes, suggesting a shared genetic basis or parallel evolution of similar regulatory differences. We conclude that genes involved in regulation of the circadian clock, such as CCA1 and TOC1, are strong candidates for the evolution of adaptive flowering time variation in C. bursa-pastoris.     

Molecular cloning and characterization of a CBF gene from Capsella bursa-pastoris.

A new CBF gene was cloned from Capsella bursa-pastoris(shepherd's purse) by rapid amplification of cDNA ends (RACE). The full-length cDNA of C. bursa-pastoris CBF gene (designated as Cbcbf) was 1034 bp long and contained a 657 bp open reading frame (ORF) encoding a putative DRE/CRT (LTRE)-binding protein of 219 amino acids. The predicted CbCBF protein was found to have a potential nuclear localization signal (NLS) in its N-terminal region followed by an AP2 DNA-binding motif and an acidic C-terminal half that might act as an activator domain. Bioinformatic analysis revealed that Cbcbf strongly resembled other CBF genes from Arabidopsis thaliana (cbf1, cbf2, cbf3) and Brassica napus (Bncbf5, Bncbf 7, Bncbf16 and Bncbf17). Subsequent cold acclimation assay showed that Cbcbf was relevant to cold acclimation. Our study implies that Cbcbf might have similar functions possessed by other CBF genes such as inducing the expression of some cold-regulated genes and increasing plants' freezing tolerance.     

Molecular cloning and characterization of a novel cold-regulated gene from Capsella bursa-pastoris.

A novel cor gene was cloned from Capsella bursa-pastoris (designated Cbcor15b) by RACE-PCR. The full-length cDNA of Cbcor15b was 652bp and contained a 417bp open reading frame (ORF) encoding a 139-amino acid hydrophilic protein. Multiple alignments showed that Cbcor15b had high similarity with other cold-regulated genes from Arabidopsis thaliana (cor15b, cor15a), Brassica napus (bn115, bn19 and bn26) and genes encoding late embryogenesis abundant (LEA) proteins. The predicted CbCOR15B protein was found to have a potential chloroplast signal sequence cleavage site, two cAMP- and cGMP-dependent protein kinase (PKA and PKG) phosphorylation sites. Cold acclimation assay showed that Cbcor15b was relevant to cold acclimation. Our study implies that Cbcor15b might have similar functions possessed by other cor genes in increasing plants' freezing tolerance.     

Bayesian inference of evolutionary history from chloroplast microsatellites in the cosmopolitan weed Capsella bursa-pastoris (Brassicaceae)

Besides showing an extraordinary degree of phenotypic variability, Capsella bursa-pastoris (Brassicaceae) is also one of the world's most common plant species and a serious weed in many countries. We have employed a coalescent-based Bayesian analysis of chloroplast microsatellite data to infer demographic and evolutionary parameters of this species. Two different demographic models applied to data from seven chloroplast microsatellite loci among 59 accessions show that the effective population size of C. bursa-pastoris is very small indicating a rapid expansion of the species, a result that is in accordance with fossil and historical data. Against this background, analysis of flowering time variation among accessions suggests that ecotypic differentiation in flowering time has occurred recently in the species' history. Finally, our results also indicate that mononucleotide repeat loci in the chloroplast genome can deteriorate in relatively short periods of evolutionary time.     

Genetic differentiation and reproductive isolation of a naturally occurring floral homeotic mutant within a wild-type population of Capsella bursa-pastoris (Brassicaceae)

Apart from the common floral architecture in Brassicaceae, variation in flower morphology occurs in several genera within the family and is considered to affect speciation processes. We analysed genetic differentiation and flowering time variation of two floral variants of Capsella bursa-pastoris , the Spe variant and the wild-type, which occur sympatrically in a vineyard in southwest Germany. The Spe variant is characterized by an additional whorl of stamens instead of petals and was formerly classified as an independent taxon ' Capsella apetala ' Opiz. Amplified fragment length polymorphism and allozyme analysis revealed a substantial genetic differentiation of the two floral variants and a higher genetic variation within the wild-type subpopulation compared with the Spe subpopulation. The low genetic variation in the mutant provided evidence of a recent local origin or recent introduction. Flowering time analysis indicated that, within the analysed population, the Spe variant flowers significantly later than the wild-type ( P  < 0.001). We conclude that the evolution and persistence of Spe within a wild-type population is facilitated by high selfing rates and been enhanced by a shift in flowering phenology. Hence, our data provide substantial evidence that the Spe phenotype has established itself as an isolated entity within a wild-type population and may thus serve as a model for the analysis of the evolutionary significance of homeotic mutants in wild populations.     

Intrageneric phylogeny of Capsella (Brassicaceae) and the origin of the tetraploid C. bursa-pastoris based on chloroplast and nuclear DNA sequences

Polyploidization, often accompanied by hybridization, has been of major importance in flowering plant evolution. Here we investigate the importance of these processes for the evolution of the tetraploid crucifer Capsella bursa-pastoris using DNA sequences from two chloroplast loci as well as from three nuclear low-copy genes. The near-absence of variation at the C. bursa-pastoris chloroplast markers suggests a single and recent origin of the tetraploid. However, despite supporting a single phylogeny, chloroplast data indicate that neither of the extant Capsella diploids is the maternal parent of the tetraploid. Combined with data from the three nuclear loci, our results do not lend support to previous hypotheses on the origin of C. bursa-pastoris as an allopolyploid between the diploids C. grandiflora and C. rubella or an autopolyploid of C. grandiflora. Nevertheless, for each locus, some of the C. bursa-pastoris accessions harbored C. rubella alleles, indicating that C. rubella contributed to the gene pool of C. bursa-pastoris, either through allopolyploid speciation or, more likely, through hybridization and introgression. To our knowledge, this study is the first of a wild, nonmodel plant genus that uses a combination of chloroplast and multiple low-copy nuclear loci for phylogenetic inference of polyploid evolution.     

Molecular Markers in the Identification of Some Early Flowering Curcuma L. (Zingiberaceae) Species

In this paper, isozymes have been used for the first time astools to aid identification of someCurcuma L. species that arestill taxonomically confused. These markers were employed toconfirm the taxonomic identification and to distinguish thetaxa analysed; the results were used to describe the relationshipwithin the early-flowering group. Twenty-one isozymes were initiallytested; out of these, eight isozymes showed reliable polymorphismto distinguish between the taxa analysed. Patterns from isozymedata were analysed using cluster analysis and UPGMA to producea dendrogram depicting the degree of relationship among thespecies. Copyright 1999 Annals of Botany Company Curcuma, Zingiberaceae, isozymes, species identification.     

'Missing link' species Capsella orientalis and Capsella thracica elucidate evolution of model plant genus Capsella (Brassicaceae)

To elucidate the evolutionary history of the genus Capsella, we included the hitherto poorly known species C. orientalis and C. thracica into our studies together with C. grandiflora, C. rubella and C. bursa‐pastoris. We sequenced the ITS and four loci of noncoding cpDNA regions (trnL – F, rps16, trnH –psbA and trnQ –rps16). Sequence data were evaluated with parsimony and Bayesian analyses. Divergence time estimates were carried out with the software package BEAST. We also performed isozyme, cytological, morphological and biogeographic studies. Capsella orientalis (self‐compatible, SC; 2n = 16) forms a clade (eastern lineage) with C. bursa‐pastoris (SC; 2n = 32), which is a sister clade (western lineage) to C. grandiflora (self‐incompatible, SI; 2n = 16) and C. rubella (SC; 2n = 16). Capsella bursa‐pastoris is an autopolyploid species of multiple origin, whereas the Bulgarian endemic C. thracica (SC; 2n = 32) is allopolyploid and emerged from interspecific hybridization between C. bursa‐pastoris and C. grandiflora. The common ancestor of the two lineages was diploid and SI, and its distribution ranged from eastern Europe to central Asia, predominantly confined to steppe‐like habitats. Biogeographic dynamics during the Pleistocene caused geographic and genetic subdivisions within the common ancestor giving rise to the two extant lineages.     

Genetic Variability ofLepidium meyeniiand other AndeanLepidiumSpecies (Brassicaceae) Assessed by Molecular Markers

A phylogenetic survey based on similarity levels was performedfor 29 cultivated accessions of maca (Lepidium meyeniiWalp.)and 27 accessions of wild species ofLepidiumfrom Ecuador, Peruand Bolivia, with RAPD markers. Chromosome counts for each accessionwere also performed. The similarity tree matrix separated intwo main branches: cultivated and wild species. The similaritylevel among cultivated accessions was high (0.952 or higher)indicating a low level of polymorphism. Within the wild species,two main secondary branches could be resolved, of which onewas subdivided into two tertiary branches. Morphological evaluationof the wild species accessions within each main group identifiedthree wild species: (1)L. bipinnatifidum, consisting mostlyof tetraploids and a single octoploid accession; (2)L. kalenbornii,consisting only of tetraploid accessions; and (3)L. chichicara,consisting mostly of octoploid and a few tetraploid accessions.Clustering by principal coordinates analysis supported the resultsobtained by the similarity tree matrix. These results indicatethat none of the three wild species is related enough to beconsidered ancestral to the cultivatedL. meyenii. Three accessionsof intermediate position may be of hybrid origin. None of thewild species was found to be diploid, which suggests that polyploidyhas been an important adaptation to high altitude habitats inthese species.Copyright 1998 Annals of Botany Company Lepidum meyenii, Lepidium peruvianum, maca, DNA markers, phylogeny.     

荠菜的民族植物学

以民族植物学的观点介绍荠菜〔Ｃａｐｓｅｌａｂｕｒｓａ－ｐａｓｔｏｒｉｓ（Ｌ．）Ｍｅｄｉｃ．〕的食用和药用历史,分析了荠菜的营养与药用价值以及现代人热衷于荠菜的原因,探讨了荠菜的民族植物文化学。作者认为,荠菜集美食、营养、保健、药用于一体,是值得开发利用的一种重要野菜。