Flow cytometric analysis in Lagenaria siceraria (Cucurbitaceae) indicates correlation of genome size with usage types and growing elevation

Achigan‐Dako, Enoch G.; Fuchs, Jörg; Ahanchédé, Adam; Blattner, Frank R.

doi:10.1007/s00606-008-0075-2

Cited by 71 publications

(48 citation statements)

References 51 publications

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“…Intraspecific genome size differences (not due to methodology or ploidy) have been reported previously (Šmarda 2006; Šmarda and Bureš 2006; Loureiro et al 2007). There are several examples of genome size variation due to reproductive isolation (Eilam et al 2008) and population isolation (Achigan-Dako et al 2008; Pellicer et al 2009; Slovak et al 2009). In these examples, differences in genome size may be the result of independently evolving lineages, which may be the case in C. caroliniana .…”

Section: Discussionmentioning

confidence: 99%

Pathways of introduction of the invasive aquatic plant Cabomba caroliniana

McCracken

Bainard

Miller

et al. 2013

Ecology and Evolution

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The pathway and frequency of species' introductions can affect the extent, impact, and management of biological invasions. Here, we examine the pathway of introduction of the aquatic plant Cabomba caroliniana (fanwort) into Canada and the northern United States using plastid DNA sequence (intergenic spacers atpF-atpH, trnH-psbA, and trnL-trnF) and DNA content analyses. We test the hypothesis that the spread of fanwort is a result of commercial trade by comparing a Canadian population (Kasshabog Lake, ON) to native populations from southern U.S., introduced populations in northern U.S., and plants from commercial retailers. Thirteen plastid haplotypes were identified throughout North America, including one dominant haplotype, which was present in all C. caroliniana populations. Several rare haplotypes were used to infer shared colonization history. In particular, the Canadian population shared two rare alleles with a population from Massachusetts, suggesting range expansion of C. caroliniana from the northern U.S. However, the possibility of a commercial introduction cannot be excluded, as common alleles were shared between the Canadian population and both commercial and southern U.S. sources. Variation in C. caroliniana genome size was bimodal and populations were classified into “high” and “low” categories. The Canadian population had DNA contents similar to several northern U.S. populations (low DNA content). This may provide additional support for range expansion from these introduced populations rather than from commercial sources or populations in the southern U.S., which had high DNA content.

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Section: Discussionmentioning

confidence: 99%

Pathways of introduction of the invasive aquatic plant Cabomba caroliniana

McCracken

Bainard

Miller

et al. 2013

Ecology and Evolution

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“…The genome of a bottle gourd inbred line, USVL1VR-Ls, was sequenced and assembled. High-quality cleaned sequences were generated from Illumina paired-end and mate-pair libraries, representing 395 9 coverage of the genome (Table S1), based on the estimated genome size of~334 Mb (Achigan-Dako et al, 2008). Analysis of K-mer distribution of the genome sequencing reads confirmed that USVL1VR-Ls was highly homozygous ( Figure S1).…”

Section: Genome Assembly Anchoring and Quality Evaluationmentioning

confidence: 99%

The bottle gourd genome provides insights into Cucurbitaceae evolution and facilitates mapping of a Papaya ring‐spot virus resistance locus

et al. 2017

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Bottle gourd (Lagenaria siceraria) is an important vegetable crop as well as a rootstock for other cucurbit crops. In this study, we report a high-quality 313.4-Mb genome sequence of a bottle gourd inbred line, USVL1VR-Ls, with a scaffold N50 of 8.7 Mb and the longest of 19.0 Mb. About 98.3% of the assembled scaffolds are anchored to the 11 pseudomolecules. Our comparative genomic analysis identifies chromosome-level syntenic relationships between bottle gourd and other cucurbits, as well as lineage-specific gene family expansions in bottle gourd. We reconstructed the genome of the most recent common ancestor of Cucurbitaceae, which revealed that the ancestral Cucurbitaceae karyotypes consisted of 12 protochromosomes with 18 534 protogenes. The 12 protochromosomes are largely retained in the modern melon genome, while have undergone different degrees of shuffling events in other investigated cucurbit genomes. The 11 bottle gourd chromosomes derive from the ancestral Cucurbitaceae karyotypes followed by 19 chromosomal fissions and 20 fusions. The bottle gourd genome sequence has facilitated the mapping of a dominant monogenic locus, Prs, conferring Papaya ring-spot virus (PRSV) resistance in bottle gourd, to a 317.8-kb region on chromosome 1. We have developed a cleaved amplified polymorphic sequence (CAPS) marker tightly linked to the Prs locus and demonstrated its potential application in marker-assisted selection of PRSV resistance in bottle gourd. This study provides insights into the paleohistory of Cucurbitaceae genome evolution, and the high-quality genome sequence of bottle gourd provides a useful resource for plant comparative genomics studies and cucurbit improvement.

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“…As for environmental characters, Knight and Ackerly [32] found correlation between GS and extreme temperatures or annual precipitations and Achigan-Dako and colleagues [33] found a correlation between GS and altitude for Lagenaria siceraria . On the other hand, Knight and Beaulieu [34] suggested that genome size correlations are quite strong at the cellular level but weak in predictive power with increasing phenotypic scale.…”

Section: Introductionmentioning

confidence: 99%

Does Variation in Genome Sizes Reflect Adaptive or Neutral Processes? New Clues from Passiflora

et al. 2011

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One of the long-standing paradoxes in genomic evolution is the observation that much of the genome is composed of repetitive DNA which has been typically regarded as superfluous to the function of the genome in generating phenotypes. In this work, we used comparative phylogenetic approaches to investigate if the variations in genome sizes (GS) should be considered as adaptive or neutral processes by the comparison between GS and flower diameters (FD) of 50 Passiflora species, more specifically, within its two most species-rich subgenera, Passiflora and Decaloba. For this, we have constructed a phylogenetic tree of these species, estimated GS and FD of them, inferred the tempo and mode of evolution of these traits and their correlations, using both current and phylogenetically independent contrasted values. We found significant correlations among the traits, when considering the complete set of data or only the subgenus Passiflora, whereas no correlations were observed within Decaloba. Herein, we present convincing evidence of adaptive evolution of GS, as well as clues that this pattern is limited by a minimum genome size, which could reduce both the possibilities of changes in GS and the possibility of phenotypic responses to environment changes.

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Flow cytometric analysis in Lagenaria siceraria (Cucurbitaceae) indicates correlation of genome size with usage types and growing elevation

Cited by 71 publications

References 51 publications

Pathways of introduction of the invasive aquatic plant Cabomba caroliniana

Pathways of introduction of the invasive aquatic plant Cabomba caroliniana

The bottle gourd genome provides insights into Cucurbitaceae evolution and facilitates mapping of a Papaya ring‐spot virus resistance locus

Does Variation in Genome Sizes Reflect Adaptive or Neutral Processes? New Clues from Passiflora

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