Conservation genetics of an endemic from the Mediterranean Basin: high genetic differentiation but no genetic diversity loss from the last populations of the Sicilian Grape Hyacinth Leopoldia gussonei

Vandepitte, Katrien; Gristina, Alessandro Silvestre; Raedt, R De; Roldán‐Ruiz, Isabel; Marcenò, Corrado; Sciandrello, Saverio; Honnay, Olivier

doi:10.1007/s10592-013-0487-6

Cited by 13 publications

(6 citation statements)

References 46 publications

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“…Phenotypic traits under genetic control often vary within and among populations of a species (Vandepitte et al . ). Extreme variability of Limonium populations is well known and has, in some cases, led to the description of new taxa growing at short distances from each other.…”

Section: Discussionmentioning

confidence: 97%

Variability on morphological and ecological seed traits of Limonium avei (De Not.) Brullo & Erben (Plumbaginaceae)

Santo

Mattana

Grillo

et al. 2017

Plant Species Biology

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Limonium avei is an annual species occurring in the salt-marshes and in limited surfaces of rocky areas around the Mediterranean coasts. Seed lots from five populations of this species, along a latitudinal gradient, were analyzed using an image analysis system to detect differences in seed morphology among populations. Germination requirements at constant (5-25 C) and alternating temperatures (25/10 C), both in light and in darkness, were evaluated for all populations, as well as the effect of the calyx removal on final seed germination and its rate. Morpho-colorimetric analysis clearly identified seeds from different populations, habitats and substrates without misattributions among them. The calyx slowed the germination process, influencing both final germination and rate with respect to naked seeds. Seeds from all populations germinated with significantly higher percentages in the light, with respect to those incubated in the darkness, and showed rapid germination (time in days to reach 50% of germination: 0.5 days) at the warmer tested temperature (25 C). High germination (>80%) was also detected for seeds of all the investigated populations, except for those from the Apulian region (South Italy, ca. 60%). Our results highlight that L. avei has a high variability in seed morphology, probably habitat induced, and a fast germination response for all populations. Rapid germination may be an adaptive strategy that allows L. avei seeds to take advantage of transient favorable conditions during the germination stage, to ensure seedling establishment under the unpredictable rainfall pattern in the Mediterranean climate.

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Section: Discussionmentioning

confidence: 97%

Variability on morphological and ecological seed traits of Limonium avei (De Not.) Brullo & Erben (Plumbaginaceae)

Santo

Mattana

Grillo

et al. 2017

Plant Species Biology

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“…( Φ ST = 0.05–0.56 by means of AFLPs; Vandepitte et al . ) in Sicily; Medicago citrina (Font Quer) Greuter ( F st = 0.185–0.548 through AFLPs; Juan et al . ), Senecio rodriguezii Willk.…”

Section: Discussionmentioning

confidence: 99%

The genetic diversity and spatial genetic structure of the Corso‐Sardinian endemic Ferula arrigonii Bocchieri (Apiaceae)

et al. 2014

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Corsica and Sardinia represent major hotspots of plant diversity in the Mediterranean area and are priority regions for conservation due to their high number of endemic plant species. However, information supporting human decision-making on the conservation of these species is still scarce, especially at the genetic level. In this work, the first assessment is reported of the species-wide spatial genetic structure and diversity of Ferula arrigonii Bocchieri, a Corso-Sardinian endemic located in a few coastal sites and on small islands. Nine populations covering the entire natural range of the species were investigated by means of AFLP (amplified fragment length polymorphism) markers. Results indicate that this species is characterised by high levels of genetic polymorphism (92% polymorphic fragments) and of genetic diversity (H(w) = 0.317) and by relatively low differentiation among populations (F(st) = 0.057). PCoA, Bayesian analysis and neighbour-joining clustering were also employed to investigate the genetic structure of this species. Three genetically distinct groups were detected, although with considerable overlap between populations.

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“…This last option offers the possibility of developing a panel of adjustable SNP number to be routinely used at lower cost depending on the goals of the study. RADseq is a RRL strategy which has gained popularity in non-model organisms because it allows obtaining huge SNP genotyping data at very low cost (Baird et al, 2008;Gompert et al, 2010;Vandepitte et al, 2013). ddRAD-seq is a variant of the classical RADseq (Baird et al, 2008), which eliminates random shearing and explicitly uses size selection to recover a tunable number of regions according to the objectives of the study (Peterson et al, 2012).…”

Section: Introductionmentioning

confidence: 99%

SNP identification and validation on genomic DNA for studying genetic diversity in Thunnus albacares and Scomberomorus brasiliensis by combining RADseq and long read high throughput sequencing

et al. 2018

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A combination of a RADseq method (ddRAD) with long read high throughput sequencing (Roche 454) was tuned up in order to identify and validate a set of SNPs useful for gene diversity analysis in two important South American commercial tuna (Thunnus albacares and Scomberomorus brasiliensis). A total of 11 and 21 individuals of T. albacares and S. brasiliensis, respectively, were used for SNP identification. DNA was individually digested with two restriction enzymes (SbfI and SphI) and fragments between 300 and 600 bp selected. Combinatorial barcoding was used to identify individuals by including short sequences (5-7 bp) in the adaptors of each restriction site (P1 and P2). After adaptor ligation, samples were pooled and size-selected, amplified by PCR, and sequenced on a 454 GS-Junior sequencer. A total of 180,779 reads were produced with an average length and coverage of 287 bp and 26x, respectively. Sets of 60 and 79 SNPs were in silico selected for T. albacares and S. brasiliensis, respectively, and were tested and validated in 74 and 66 individuals, respectively, on a MassARRAY platform. A total of 36 and 47 SNPs were polymorphic and useful for population analysis. A preliminary study on two distant Brazilian populations of both species (∼3000 km) with these SNPs suggested the absence of significant structure among local populations of both species. Our results demonstrate the possibility of combining ddRAD with long read high throughput sequencing for marker development in species with scarce genomic resources.

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Conservation genetics of an endemic from the Mediterranean Basin: high genetic differentiation but no genetic diversity loss from the last populations of the Sicilian Grape Hyacinth Leopoldia gussonei

Cited by 13 publications

References 46 publications

Variability on morphological and ecological seed traits of Limonium avei (De Not.) Brullo & Erben (Plumbaginaceae)

Variability on morphological and ecological seed traits of Limonium avei (De Not.) Brullo & Erben (Plumbaginaceae)

The genetic diversity and spatial genetic structure of the Corso‐Sardinian endemic Ferula arrigonii Bocchieri (Apiaceae)

SNP identification and validation on genomic DNA for studying genetic diversity in Thunnus albacares and Scomberomorus brasiliensis by combining RADseq and long read high throughput sequencing

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