| Records |
| Author |
Aili, S.R.; Touchard, A.; Escoubas, P.; Padula, M.P.; Orivel, J.; Dejean, A.; Nicholson, G.M. |
| Title |
Diversity of peptide toxins from stinging ant venoms |
Type |
Journal Article |
| Year |
2014 |
Publication |
Toxicon |
Abbreviated Journal |
Toxicon |
| Volume |
92 |
Issue |
|
Pages |
166-178 |
| Keywords |
Ant venom; Chemotaxonomy; Disulfide linkage; Peptides; Venom biochemistry |
| Abstract |
Ants (Hymenoptera: Formicidae) represent a taxonomically diverse group of arthropods comprising nearly 13,000 extant species. Sixteen ant subfamilies have individuals that possess a stinger and use their venom for purposes such as a defence against predators, competitors and microbial pathogens, for predation, as well as for social communication. They exhibit a range of activities including antimicrobial, haemolytic, cytolytic, paralytic, insecticidal and pain-producing pharmacologies. While ant venoms are known to be rich in alkaloids and hydrocarbons, ant venoms rich in peptides are becoming more common, yet remain understudied. Recent advances in mass spectrometry techniques have begun to reveal the true complexity of ant venom peptide composition. In the few venoms explored thus far, most peptide toxins appear to occur as small polycationic linear toxins, with antibacterial properties and insecticidal activity. Unlike other venomous animals, a number of ant venoms also contain a range of homodimeric and heterodimeric peptides with one or two interchain disulfide bonds possessing pore-forming, allergenic and paralytic actions. However, ant venoms seem to have only a small number of monomeric disulfide-linked peptides. The present review details the structure and pharmacology of known ant venom peptide toxins and their potential as a source of novel bioinsecticides and therapeutic agents. |
| Address |
Laboratoire Écologie Fonctionnelle et Environnement, Université de Toulouse, 118 Route de NarbonneToulouse, France |
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| Publisher |
Elsevier Ltd |
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Edition |
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00410101 (Issn) |
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Export Date: 2 December 2014; Coden: Toxia; Correspondence Address: Nicholson, G.M.; Neurotoxin Research Group, School of Medical and Molecular Biosciences, University of Technology SydneyAustralia |
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no |
| Call Number |
EcoFoG @ webmaster @ |
Serial  |
568 |
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| Author |
Cottet, K.; Genta-Jouve, G.; Fromentin, Y.; Odonne, G.; Duplais, C.; Laprévote, O.; Michel, S.; Lallemand, M.-C. |
| Title |
Comparative LC-MS-based metabolite profiling of the ancient tropical rainforest tree Symphonia globulifera |
Type |
Journal Article |
| Year |
2014 |
Publication |
Phytochemistry |
Abbreviated Journal |
Phytochemistry |
| Volume |
108 |
Issue |
|
Pages |
102-108 |
| Keywords |
Kendrick mass defect; Lc-Ms; Plant organs; Symphonia globulifera; Untargeted metabolomics; Symphonia globulifera |
| Abstract |
In the last few years, several phytochemical studies have been undertaken on the tropical tree Symphonia globulifera leading to the isolation and characterisation of several compounds exhibiting antiparasitic activities against Plasmodium falciparum, Trypanosoma brucei and Leishmania donovani. The comparative LC-MS based metabolite profiling study conducted on the tree led to the identification of compounds originating from specific tissues. The results showed that renewable organs/tissues can be used as the starting material for the production of polycyclic poly-prenylated-acylphloroglucinols, therefore reducing impacts on biodiversity. This study also underlined the lack of knowledge on the secondary metabolites produced by S. globulifera since only a small number of the total detected features were putatively identified using the database of known compounds for the species. |
| Address |
Laboratoire de Chimie et Toxicologie Analytique et Cellulaire, UMR 8638, Université Paris Descartes Sorbonne Paris Cité, 4 Avenue de l'ObservatoireParis, France |
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| Publisher |
Elsevier Ltd |
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00319422 (Issn) |
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Export Date: 2 December 2014; Coden: Pytca; Correspondence Address: Genta-Jouve, G.; Laboratoire de Pharmacognosie, UMR 8638, Université Paris Descartes Sorbonne Paris Cité, 4 Avenue de l'Observatoire, France |
Approved |
no |
| Call Number |
EcoFoG @ webmaster @ |
Serial |
569 |
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| Author |
Lenoir, A.; Touchard, A.; Devers, S.; Christidès, J.-P.; Boulay, R.; Cuvillier-Hot, V. |
| Title |
Ant cuticular response to phthalate pollution |
Type |
Journal Article |
| Year |
2014 |
Publication |
Environmental Science and Pollution Research |
Abbreviated Journal |
Environ. Sci. Pollut. Res. |
| Volume |
21 |
Issue |
23 |
Pages |
13446-13451 |
| Keywords |
Absorption; Ants; Bbp; Bioindicator; Cuticle; Dbp; Dehp; DiBP; Phthalates; Pollutants |
| Abstract |
Phthalates are common atmospheric contaminants used in the plastic industry. Ants have been shown to constitute good bioindicators of phthalate pollution. Hence, phthalates remain trapped on ant cuticles which are mostly coated with long-chain hydrocarbons. In this study, we artificially contaminated Lasius niger ants with four phthalates: dibutyl phthalate (DBP), diisobutyl phthalate (DiBP), di(2-ethylhexyl) phthalate (DEHP), and benzyl butyl phthalate (BBP). The first three have previously been found on ants in nature in Touraine (France), while the fourth has not. The four phthalates disappeared rapidly (less than 5 days) from the cuticles of live ants. In contrast, on the cuticles of dead ants, DEHP quantities remained unchanged over time. These results indicate that phthalates are actively absorbed by the cuticles of live ants. Cuticular absorption of phthalates is nonspecific because eicosane, a nonnatural hydrocarbon on L. niger cuticle, was similarly absorbed. Ants are important ecological engineers and may serve as bioindicators of ecosystem health. We also suggest that ants and more generally terrestrial arthropods may contribute to the removal of phthalates from the local environment. |
| Address |
CNRS, UMR Écologie des Forêts de Guyane (EcoFoG), Campus Agronomique, BP 316Kourou Cedex, France |
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Springer Verlag |
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09441344 (Issn) |
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Export Date: 5 December 2014; Coden: Esple; Correspondence Address: Lenoir, A.; IRBI, Institut de Recherche sur la Biologie de l’Insecte, UMR CNRS 7261, Université François RabelaisFrance |
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no |
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EcoFoG @ webmaster @ |
Serial |
570 |
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| Author |
Sist, P.; Rutishauser, E.; Peña-Claros, M.; Shenkin, A.; Herault, B.; Blanc, L.; Baraloto, C.; Baya, F.; Benedet, F.; da Silva, K.E.; Descroix, L.; Ferreira, J.N.; Gourlet-Fleury, S.; Guedes, M.C.; Bin Harun, I.; Jalonen, R.; Kanashiro, M.; Krisnawati, H.; Kshatriya, M.; Lincoln, P.; Mazzei, L.; Medjibé, V.; Nasi, R.; d'Oliveira, M.V.N.; de Oliveira, L.C.; Picard, N.; Pietsch, S.; Pinard, M.; Priyadi, H.; Putz, F.E.; Rodney, K.; Rossi, V.; Roopsind, A.; Ruschel, A.R.; Shari, N.H.Z.; Rodrigues de Souza, C.; Susanty, F.H.; Sotta, E.D.; Toledo, M.; Vidal, E.; West, T.A.P.; Wortel, V.; Yamada, T. |
| Title |
The Tropical managed forests Observatory: A research network addressing the future of tropical logged forests |
Type |
Journal Article |
| Year |
2015 |
Publication |
Applied Vegetation Science |
Abbreviated Journal |
Appl. Veg. Sci. |
| Volume |
18 |
Issue |
1 |
Pages |
171-174 |
| Keywords |
Biodiversity; Carbon cycle; Climate change; Ecosystem resilience; Logging; Silviculture; Tropical forests; Tropical managed forests Observatory |
| Abstract |
While attention on logging in the tropics has been increasing, studies on the long-term effects of silviculture on forest dynamics and ecology remain scare and spatially limited. Indeed, most of our knowledge on tropical forests arises from studies carried out in undisturbed tropical forests. This bias is problematic given that logged and disturbed tropical forests are now covering a larger area than the so-called primary forests. A new network of permanent sample plots in logged forests, the Tropical managed Forests Observatory (TmFO), aims to fill this gap by providing unprecedented opportunities to examine long-term data on the resilience of logged tropical forests at regional and global scales. TmFO currently includes 24 experimental sites distributed across three tropical regions, with a total of 490 permanent plots and 921 ha of forest inventories. To improve our knowledge of the resilience of tropical logged forests, 20 research institutes are now collaborating on studies on the effects of logging on forest structure, productivity, biodiversity and carbon fluxes at large spatial and temporal scales. These studies are carried out in the Tropical managed Forests Observatory (TmFO), an international network including 24 sites and 490 permanent sample plots across South America, Africa and South East Asia. |
| Address |
Duke University's Nicholas School of the EnvironmentNorth Carolina, United States |
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| Publisher |
Wiley-Blackwell |
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14022001 (Issn) |
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Export Date: 12 December 2014; Coden: Avscf; Correspondence Address: Sist, P.; Cirad, UR 105 TA/10CFrance |
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no |
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EcoFoG @ webmaster @ |
Serial |
571 |
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| Author |
Hénaut, Y.; Corbara, B.; Pélozuelo, L.; Azémar, F.; Céréghino, R.; Herault, B.; Dejean, A. |
| Title |
A tank bromeliad favors spider presence in a neotropical inundated forest |
Type |
Journal Article |
| Year |
2014 |
Publication |
PLoS ONE |
Abbreviated Journal |
PLoS ONE |
| Volume |
9 |
Issue |
12 |
Pages |
e114592 |
| Keywords |
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| Abstract |
Tank bromeliads are good models for understanding how climate change may affect biotic associations. We studied the relationships between spiders, the epiphytic tank bromeliad, Aechmea bracteata, and its associated ants in an inundated forest in Quintana Roo, Mexico, during a drought period while, exceptionally, this forest was dry and then during the flooding that followed. We compared spider abundance and diversity between “Aechmea-areas” and “control areas” of the same surface area. We recorded six spider families: the Dipluridae, Ctenidae, Salticidae, Araneidae, Tetragnathidae and Linyphiidae among which the funnel-web tarantula, Ischnothele caudata, the only Dipluridae noted, was the most abundant. During the drought period, the spiders were more numerous in the Aechmea areas than in the control areas, but they were not obligatorily associated with the Aechmea.
During the subsequent flooding, the spiders were concentrated in the A. bracteata patches, particularly those sheltering an ant colony. Also, a kind of specificity existed between certain spider taxa and ant species, but varied between the drought period and subsequent flooding. We conclude that climatic events modulate the relationship between A. bracteata patches and their associated fauna. Tank bromeliads, previously considered only for their ecological importance in supplying food and water during drought, may also be considered refuges for spiders during flooding. More generally, tank bromeliads have an important role in preserving non-specialized fauna in inundated forests. |
| Address |
Ecologie des Forêts de Guyane, Campus AgronomiqueKourou, France |
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| Notes |
Export Date: 23 December 2014 |
Approved |
no |
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EcoFoG @ webmaster @ |
Serial |
573 |
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| Author |
Khia, A.; Ghanmi, M.; Satrani, B.; Aafi, A.; Aberchane, M.; Quaboul, B.; Chaouch, A.; Amusant, N.; Charrouf, Z. |
| Title |
Effect of provenance on the chemical and microbiological quality of essential oils of Rosmarinus officinalis L. in Morocco |
Type |
Journal Article |
| Year |
2014 |
Publication |
Phytotherapie |
Abbreviated Journal |
Phytotherapie |
| Volume |
12 |
Issue |
6 |
Pages |
341-347 |
| Keywords |
Antibacterial; Antifungal activity; Chemical composition; Essential Oil; Provenance; Rosmarinus officinalis |
| Abstract |
This study is an assessment of the chemical quality and evaluation of antibacterial and antifungal activity of rosemary’s essential oils from three regions of Morocco (Rchida and Berkine/Eastern Morocco and Aknoul/North East of Morocco. The essential oils obtained by hydrodistillation of the leaves and young twigs of rosemary, were analyzed by GC / FID and GC/ MS. These essential oils are characterized by the presence of α and β-pinene, camphene, 1,8-cineole and camphor compounds. The quality of these essential oils met the AFNOR NF ISO 4730 rosemary Morocco kind (1,8-cineole). The evaluation of the antimicrobial activity of essential oils of Rosmarinus officinalis showed low efficacy against microorganisms tested which were all inhibited from 1/100 v/v except for Penicillium expansum whose growth was stopped at the concentration 1/250 v/v. |
| Address |
Département d’Environnement et Sociétés, UMR EcoFoG, CIRAD, BP 732Kourou cedex, French Guiana |
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| Notes |
Export Date: 31 December 2014 |
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no |
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EcoFoG @ webmaster @ |
Serial |
574 |
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Turcotte, M.M.; Thomsen, C.J.M.; Broadhead, G.T.; Fine, P.V.A.; Godfrey, R.M.; Lamarre, G.P.A.; Meyer, S.T.; Richards, L.A.; Johnson, M.T.J. |
| Title |
Percentage leaf herbivory across vascular plant species |
Type |
Journal Article |
| Year |
2014 |
Publication |
Ecology |
Abbreviated Journal |
Ecology |
| Volume |
95 |
Issue |
3 |
Pages |
788-788 |
| Keywords |
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| Abstract |
Herbivory is viewed as a major driver of plant evolution and the most important energy pathway from plants to higher trophic levels. Therefore, understanding patterns of herbivory on plants remains a key focus in evolution and ecology. The evolutionary impacts of leaf herbivory include altering plant fitness, local adaptation, the evolution of defenses, and the diversification of plants as well as natural enemies. Leaf herbivory also impacts ecological processes such as plant productivity, community composition, and ecosystem nutrient cycling. Understanding the impact of herbivory on these ecological and evolutionary processes requires species-specific, as opposed to community-level, measures of herbivory. In addition, species-specific data enables the use of modern comparative methods to account for phylogenetic non-independence. Although hundreds of studies have measured natural rates of leaf consumption, we are unaware of any accessible compilation of these data. We created such a data set to provide the raw data needed to test general hypotheses relating to plant?herbivore interactions and to test the influence of biotic and abiotic factors on herbivory rates across large spatial scales. A large repository will make this endeavor more efficient and robust. In total, we compiled 2641 population-level measures for either annual or daily rates of leaf herbivory across 1145 species of vascular plants collected from 189 studies. All damage measures represent natural occurrences of herbivory that span numerous angiosperm, gymnosperm, and fern species. To enable researchers to explore the causes of variation in herbivory and how these might interact, we added information about the study sites including: geolocation, climate classification, habitat descriptions (e.g., seashore, grassland, forest, agricultural fields), and plant trait information concerning growth form and duration (e.g., annual vs. perennial). We also included extensive details of the methodology used to measure leaf damage, including seasons and months of sampling, age of leaves, and the method used to estimate percentage area missing. We anticipate that these data will make it possible to test important hypotheses in the plant?herbivore literature, including the plant apparency hypothesis, the latitudinal-herbivory defense hypothesis, the resource availability hypothesis, and the macroevolutionary escalation of defense hypothesis. |
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Ecological Society of America |
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0012-9658 |
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| Notes |
doi: 10.1890/13-1741.1 |
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no |
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EcoFoG @ webmaster @ |
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575 |
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Roggy, J.-C. ;Schimann, H.;Sabatier, D.;Molino, J.-F.;Freycon, V.;Domenach, A.-M. |
| Title |
Complementary N Uptake Strategies between Tree Species in Tropical Rainforest |
Type |
Journal Article |
| Year |
2014 |
Publication |
International Scholarly Research Notices |
Abbreviated Journal |
ISRN |
| Volume |
2014 |
Issue |
Article ID 427194 |
Pages |
1-6 |
| Keywords |
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| Abstract |
Within tree communities, the differential use of soil N mineral resources, a key factor in ecosystem functioning, may reflect functional complementarity, a major mechanism that could explain species coexistence in tropical rainforests. Eperua falcata and Dicorynia guianensis, two abundant species cooccurring in rainforests of French Guiana, were chosen as representative of two functional groups with complementary N uptake strategies (contrasting leaf d15N signatures related to the d15N of their soil N source, NO3- or NH4+). The objectives were to investigate if these strategies occurred under contrasted soil N resources in sites with distinct geological substrates representative of the coastal rainforests. Results showed that species displayed contrasting leaf d15N signatures on both substrates, confirming their complementary N uptake strategy. Consequently, their leaf 15N can be used to trace the presence of inorganic N-forms in soils (NH4+ and NO3-) and thus to indicate the capacity of soils to provide each of these two N sources to the plant community. |
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no |
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EcoFoG @ webmaster @ |
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576 |
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Hudson, L.N.; Newbold, T.; Contu, S.; Hill, S.L.L.; Lysenko, I.; De Palma, A.; Phillips, H.R.P.; Senior, R.A.; Bennett, D.J.; Booth, H.; Choimes, A.; Correia, D.L.P.; Day, J.; Echeverría-Londoño, S.; Garon, M.; Harrison, M.L.K.; Ingram, D.J.; Jung, M.; Kemp, V.; Kirkpatrick, L.; Martin, C.D.; Pan, Y.; White, H.J.; Aben, J.; Abrahamczyk, S.; Adum, G.B.; Aguilar-Barquero, V.; Aizen, M.A.; Ancrenaz, M.; Arbeláez-Cortés, E.; Armbrecht, I.; Azhar, B.; Azpiroz, A.B.; Baeten, L.; Báldi, A.; Banks, J.E.; Barlow, J.; Batáry, P.; Bates, A.J.; Bayne, E.M.; Beja, P.; Berg, A.; Berry, N.J.; Bicknell, J.E.; Bihn, J.H.; Böhning-Gaese, K.; Boekhout, T.; Boutin, C.; Bouyer, J.; Brearley, F.Q.; Brito, I.; Brunet, J.; Buczkowski, G.; Buscardo, E.; Cabra-García, J.; Calviño-Cancela, M.; Cameron, S.A.; Cancello, E.M.; Carrijo, T.F.; Carvalho, A.L.; Castro, H.; Castro-Luna, A.A.; Cerda, R.; Cerezo, A.; Chauvat, M.; Clarke, F.M.; Cleary, D.F.R.; Connop, S.P.; D'Aniello, B.; da Silva, P.G.; Darvill, B.; Dauber, J.; Dejean, A.; Diekötter, T.; Dominguez-Haydar, Y.; Dormann, C.F.; Dumont, B.; Dures, S.G.; Dynesius, M.; Edenius, L.; Elek, Z.; Entling, M.H.; Farwig, N.; Fayle, T.M.; Felicioli, A.; Felton, A.M.; Ficetola, G.F.; Filgueiras, B.K.C.; Fonte, S.J.; Fraser, L.H.; Fukuda, D.; Furlani, D.; Ganzhorn, J.U.; Garden, J.G.; Gheler-Costa, C.; Giordani, P.; Giordano, S.; Gottschalk, M.S.; Goulson, D.; Gove, A.D.; Grogan, J.; Hanley, M.E.; Hanson, T.; Hashim, N.R.; Hawes, J.E.; Hébert, C.; Helden, A.J.; Henden, J.-A.; Hernández, L.; Herzog, F.; Higuera-Diaz, D.; Hilje, B.; Horgan, F.G.; Horváth, R.; Hylander, K.; Isaacs-Cubides, P.; Ishitani, M.; Jacobs, C.T.; Jaramillo, V.J.; Jauker, B.; Jonsell, M.; Jung, T.S.; Kapoor, V.; Kati, V.; Katovai, E.; Kessler, M.; Knop, E.; Kolb, A.; Korösi, Á.; Lachat, T.; Lantschner, V.; Le Féon, V.; Lebuhn, G.; Légaré, J.-P.; Letcher, S.G.; Littlewood, N.A.; López-Quintero, C.A.; Louhaichi, M.; Lövei, G.L.; Lucas-Borja, M.E.; Luja, V.H.; Maeto, K.; Magura, T.; Mallari, N.A.; Marin-Spiotta, E.; Marshall, E.J.P.; Martínez, E.; Mayfield, M.M.; Mikusinski, G.; Milder, J.C.; Miller, J.R.; Morales, C.L.; Muchane, M.N.; Muchane, M.; Naidoo, R.; Nakamura, A.; Naoe, S.; Nates-Parra, G.; Navarrete Gutierrez, D.A.; Neuschulz, E.L.; Noreika, N.; Norfolk, O.; Noriega, J.A.; Nöske, N.M.; O'Dea, N.; Oduro, W.; Ofori-Boateng, C.; Oke, C.O.; Osgathorpe, L.M.; Paritsis, J.; Parra-H, A.; Pelegrin, N.; Peres, C.A.; Persson, A.S.; Petanidou, T.; Phalan, B.; Philips, T.K.; Poveda, K.; Power, E.F.; Presley, S.J.; Proença, V.; Quaranta, M.; Quintero, C.; Redpath-Downing, N.A.; Reid, J.L.; Reis, Y.T.; Ribeiro, D.B.; Richardson, B.A.; Richardson, M.J.; Robles, C.A.; Römbke, J.; Romero-Duque, L.P.; Rosselli, L.; Rossiter, S.J.; Roulston, T.H.; Rousseau, L.; Sadler, J.P.; Sáfián, S.; Saldaña-Vázquez, R.A.; Samnegård, U.; Schüepp, C.; Schweiger, O.; Sedlock, J.L.; Shahabuddin, G.; Sheil, D.; Silva, F.A.B.; Slade, E.M.; Smith-Pardo, A.H.; Sodhi, N.S.; Somarriba, E.J.; Sosa, R.A.; Stout, J.C.; Struebig, M.J.; Sung, Y.-H.; Threlfall, C.G.; Tonietto, R.; Tóthmérész, B.; Tscharntke, T.; Turner, E.C.; Tylianakis, J.M.; Vanbergen, A.J.; Vassilev, K.; Verboven, H.A.F.; Vergara, C.H.; Vergara, P.M.; Verhulst, J.; Walker, T.R.; Wang, Y.; Watling, J.I.; Wells, K.; Williams, C.D.; Willig, M.R.; Woinarski, J.C.Z.; Wolf, J.H.D.; Woodcock, B.A.; Yu, D.W.; Zaitsev, A.S.; Collen, B.; Ewers, R.M.; Mace, G.M.; Purves, D.W.; Scharlemann, J.P.W.; Purvis, A. |
| Title |
The PREDICTS database: A global database of how local terrestrial biodiversity responds to human impacts |
Type |
Journal Article |
| Year |
2014 |
Publication |
Ecology and Evolution |
Abbreviated Journal |
Ecology and Evolution |
| Volume |
4 |
Issue |
24 |
Pages |
4701-4735 |
| Keywords |
Data sharing; Global change; Habitat destruction; Land use |
| Abstract |
Biodiversity continues to decline in the face of increasing anthropogenic pressures such as habitat destruction, exploitation, pollution and introduction of alien species. Existing global databases of species' threat status or population time series are dominated by charismatic species. The collation of datasets with broad taxonomic and biogeographic extents, and that support computation of a range of biodiversity indicators, is necessary to enable better understanding of historical declines and to project – and avert – future declines. We describe and assess a new database of more than 1.6 million samples from 78 countries representing over 28,000 species, collated from existing spatial comparisons of local-scale biodiversity exposed to different intensities and types of anthropogenic pressures, from terrestrial sites around the world. The database contains measurements taken in 208 (of 814) ecoregions, 13 (of 14) biomes, 25 (of 35) biodiversity hotspots and 16 (of 17) megadiverse countries. The database contains more than 1% of the total number of all species described, and more than 1% of the described species within many taxonomic groups – including flowering plants, gymnosperms, birds, mammals, reptiles, amphibians, beetles, lepidopterans and hymenopterans. The dataset, which is still being added to, is therefore already considerably larger and more representative than those used by previous quantitative models of biodiversity trends and responses. The database is being assembled as part of the PREDICTS project (Projecting Responses of Ecological Diversity In Changing Terrestrial Systems – www.predicts.org.uk). We make site-level summary data available alongside this article. The full database will be publicly available in 2015. The collation of biodiversity datasets with broad taxonomic and biogeographic extents is necessary to understand historical declines and to project – and hopefully avert – future declines. We describe a newly collated database of more than 1.6 million biodiversity measurements from 78 countries representing over 28,000 species, collated from existing spatial comparisons of local-scale biodiversity exposed to different intensities and types of anthropogenic pressures, from terrestrial sites around the world. |
| Address |
Centre for Biodiversity and Environment Research, Department of Genetics, Evolution and Environment, University College London, Gower StreetLondon, United Kingdom |
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Export Date: 6 January 2015 |
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EcoFoG @ webmaster @ |
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577 |
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Lalague, H.; Csilléry, K.; Oddou-Muratorio, S.; Safrana, J.; de Quattro, C.; Fady, B.; González-Martínez, S.C.; Vendramin, G.G. |
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Nucleotide diversity and linkage disequilibrium at 58 stress response and phenology candidate genes in a European beech (Fagus sylvatica L.) population from southeastern France |
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Journal Article |
| Year |
2014 |
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Tree Genetics and Genomes |
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Tree Genetics and Genomes |
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10 |
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1 |
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15-26 |
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Climate adaptation; Effective population size; Forest tree; Genomic diversity; Minor allele frequency (MAF); Recombination rate; Single nucleotide polymorphism (SNP) |
| Abstract |
European beech (Fagus sylvatica L.) is one of the most economically and ecologically important deciduous trees in Europe, yet little is known about its genomic diversity and its adaptive potential. Here, we detail the discovery and analysis of 573 single nucleotide polymorphisms (SNPs) from 58 candidate gene fragments that are potentially involved in abiotic stress response and budburst phenology using a panel of 96 individuals from southeastern France. The mean nucleotide diversity was low (θ π = 2.2 × 10-3) but extremely variable among gene fragments (range from 0.02 to 10), with genes carrying insertion/deletion mutations exhibiting significantly higher diversity. The decay of linkage disequilibrium (LD) measured at gene fragments >800 base pairs was moderate (the half distance of r 2 was 154 bp), consistent with the low average population-scaled recombination rate (ρ = 5.4 × 10-3). Overall, the population-scaled recombination rate estimated in F. sylvatica was lower than for other angiosperm tree genera (such as Quercus or Populus) and similar to conifers. As a methodological perspective, we explored the effect of minimum allele frequency (MAF) on LD and showed that higher MAF resulted in slower decay of LD. It is thus essential that the same MAF is used when comparing the decay of LD among different studies and species. Our results suggest that genome-wide association mapping can be a potentially efficient approach in F. sylvatica, which has a relatively small genome size. © 2013 Springer-Verlag Berlin Heidelberg. |
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Department of Forest Ecology and Genetics, National Institute for Agriculture and Food Research and Technology (INIA), Forest Research Centre (CIFOR), 28040 Madrid, Spain |
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Cited By :1; Export Date: 13 January 2015 |
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EcoFoG @ webmaster @ |
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578 |
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