Stefano Pavan

Stefano Pavan
Università degli Studi di Bari Aldo Moro | Università di Bari · Dipartimento di Scienze del Suolo, della Pianta e degli Alimenti (Di.S.S.P.A.)

Doctor of Philosophy

About

84
Publications
28,596
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Introduction
Stefano Pavan is Associate Professor in Agricultural Genetics at the University of Bari "Aldo Moro", Departmant of Soil, Plant and Food Science. His research interests include plant breeding, plant-pathogen interactions and plant biodiversity. He is currently involved in two research projects: 'Biodiversità delle specie orticole della Puglia' (BiodiverSO, www.biodiversitapuglia.it) and 'LEgume GEnetic REsources as a tool for the development of innovative food TEchnological system' (LeGeReTe).
Additional affiliations
November 2019 - November 2022
Henan Academy of Agricultural Sciences
Position
  • Honorary Professor
January 2009 - November 2017
Università degli Studi di Bari Aldo Moro
Position
  • Professor (Assistant)
May 2006 - December 2011
Wageningen University & Research
Position
  • PhD
Education
December 2011
Wageningen University & Research
Field of study
  • Plant Breeding
April 2008
Università degli Studi di Bari Aldo Moro
Field of study
  • Plant breeding and Plant Pathology
April 2004
Università degli Studi di Bari Aldo Moro
Field of study
  • Agricultural Science

Publications

Publications (84)
Article
Full-text available
Genetic structure and distinctive features of landraces, such as adaptability to local agroecosystems and specific qualitative profiles, can be substantially altered by the massive introduction of allochthonous germplasm. The landrace known as “Cipolla rossa di Acquaviva” (Acquaviva red onion, further referred to as ARO) is traditionally cultivated...
Preprint
Cultivated peanut (Arachis hypogaea L.) is one of the most widely grown oilseed crops worldwide, however the events leading to its origin and diversification are not fully understood. Here, by combining chloroplast and whole genome sequence data from a large germplasm collection, we show that the two A. hypogaea subspecies (hypogaea and fastigiata)...
Article
Full-text available
Climate change and global population growth call for urgent recovery of genetic variation from underexploited or unexplored durum wheat (Triticum turgidum ssp. durum) landraces. Indeed, these untapped genetic resources can be a valuable source of favorable alleles for environmental adaptation and tolerance or resistance to (a)biotic stress. In sout...
Article
Full-text available
The outbreak of the olive quick decline syndrome caused by Xylella fastidiosa represents one of the main agricultural threats in Italy. Recently, thirty asymptomatic or paucisymptomatic genotypes found in olive groves heavily compromised by the bacterium were identified. HPLC ESI/MS-TOF analyses on leaf petiole extract were carried out to character...
Article
Full-text available
Pea (Pisum sativum L. subsp. sativum) is one of the oldest domesticated species and a widely cultivated legume. In this study, we combined next generation sequencing (NGS) data referring to two genotyping-by-sequencing (GBS) libraries, each one prepared from a different Pisum germplasm collection. The selection of single nucleotide polymorphism (SN...
Article
Full-text available
The recent outbreak of the Olive Quick Decline Syndrome (OQDS), caused by Xylella fastidiosa subsp. pauca ( Xf ), is dramatically altering ecosystem services in the peninsula of Salento (Apulia Region, southeastern Italy). Here we report the accomplishment of several exploratory missions in the Salento area, resulting in the identification of thirt...
Article
Epidemiological studies reported an inverse association between the consumption of legumes and the incidence of age-related diseases. This trend could be attributed to the presence of antioxidant compounds, especially phenolic and flavonoid compounds. In this paper, five pea ( Pisum sativum L.) and twelve chickpea ( Cicer arietinum L.) accessions,...
Article
Full-text available
Genotyping by sequencing (GBS) was used to analyze relationships among cowpea and asparagus bean landraces from southern Italy and to assess the utility of this technology to study taxonomy in a wider panel, including V. unguiculata cultigroups, subspecies, and other Vigna species. The analysis of SNPs derived from GBS highlighted that, among the c...
Article
Full-text available
This dataset is referred to a collection of 41 faba bean (Vicia faba L.) and 15 lentil (Lens culinaris Medik.) accessions from the ex situ repository of the Institute of Biosciences and Bioresources of the Italian National Research Council (CNR-IBBR). All the accessions were grown at the experimental farm “P. Martucci” of the University of Bari “Al...
Article
Full-text available
Almond [Prunus dulcis Miller (D.A. Webb)] is the main tree nut species worldwide. Here, genotyping-by-sequencing (GBS) was applied to 149 almond cultivars from the ex situ collections of the Italian Council for Agricultural Research (CREA) and the Spanish National Research Council (CSIC), leading to the detection of 93,119 single-nucleotide polymor...
Article
Full-text available
High-throughput genotyping boosts genome-wide association studies (GWAS) in crop species, leading to the identification of single-nucleotide polymorphisms (SNPs) associated with economically important traits. Choosing a cost-effective genotyping method for crop GWAS requires careful examination of several aspects, namely, the purpose and the scale...
Article
Full-text available
The first breeding program in the world for durum wheat was conceived in Italy in the early 1900s. Over the decades, pressure exerted by natural and artificial selection could have progressively reduced the genetic diversity of the durum wheat germplasm. In the present study, a large panel of Italian durum wheat accessions that includes landraces,...
Article
Full-text available
Dietary habits are crucially important to prevent the development of lifestyle-associated diseases. Diets supplemented with chickpeas have numerous benefits and are known to improve body fat composition. The present study was undertaken to characterize two genetically and phenotypically distinct accessions, MG_13 and PI358934, selected from a globa...
Article
Full-text available
Onion (Allium cepa L.) is the second most important vegetable crop worldwide and is widely appreciated for its health benefits. Despite its significant economic importance and its value as functional food, onion has been poorly investigated with respect to its genetic diversity. Herein, we surveyed the genetic variation in the "Acquaviva red onion"...
Article
Full-text available
The data article refers to the paper "Nutritional, physico-chemical and functional characterization of a global chickpea collection" [1]. The data are referred to a germplasm collection of 57 chickpea accessions from the ex situ repositories of the United States Department of Agriculture (USDA), the Department of Plant, Soil and Food Science of the...
Article
Full-text available
The common bean (Phaseolus vulgaris L.) is one of the main legumes worldwide and represents a valuable source of nutrients. Independent domestication events in the Americas led to the formation of two cultivated genepools, namely Mesoamerican and Andean, to which European material has been brought back. In this study, Italian common bean landraces...
Article
Full-text available
Cultivated lentil (Lens culinaris Medik.) is one of the oldest domesticated crops and one of the most important grain legumes worldwide. The Mediterranean Basin holds large part of lentil biodiversity; however, no genetic structure was defined within the Mediterranean gene pool. In this study, we used high-throughput genotyping by sequencing to res...
Article
Full-text available
The olive is a fruit tree species with a century-old history of cultivation in theMediterranean basin. In Apulia (Southern Italy), the olive is of main social, cultural and economicimportance, and represents a hallmark of the rural landscape. However, olive cultivation in thisregion is threatened by the recent spread of the olive quick decline synd...
Article
A comprehensive study to assess and compare physico-chemical, nutritional and functional properties of a chickpea germplasm collection was carried out. The collection, composed of 57 accessions, also included black chickpeas from Apulia (Southern Italy), previously shown to display peculiar phenotypic and genetic features with respect to desi and k...
Article
Broccoli rabe (Brassica rapa L. subsp. sylvestris (L.) Janch.) is a vegetable crop cultivated in southern Italy where it is part of local traditional recipes and heritage. Despite its economic importance, there are no cultivars patented, giving rise to many cultivated landraces that are characterized by wide phenotypic variability and named accordi...
Article
How to make almonds palatable The domesticated almond tree has been feeding humans for millennia. Derivation from the wild, bitter, and toxic almond required loss of the cyanogenic diglucoside amygdalin. Sánchez-Pérez et al. sequenced the almond genome and analyzed the genomic region responsible for this shift. The key change turned out to be a poi...
Article
Full-text available
Background Powdery mildew (PM) is a widespread fungal disease of plants in temperate climates, causing significant economic losses in agricultural settings. Specific homologs of the MLO gene family are PM susceptibility factors, as their loss-of function results in durable PM resistance (mlo resistance) in several plant species. The role of MLO sus...
Article
Full-text available
Climate change, associated with global warming, extreme weather events, and increasing incidence of weeds, pests and pathogens, is strongly influencing major cropping systems. In this challenging scenario, miscellaneous strategies are needed to expedite the rate of genetic gains with the purpose of developing novel varieties. Large plant breeding p...
Article
Full-text available
Abstract Information on the distribution of genetic variation is essential to preserve olive germplasm from erosion and to recover alleles lost through selective breeding. In addition, knowledge on population structure and genotype–phenotype associations is crucial to support modern olive breeding programs that must respond to new environmental con...
Article
Full-text available
Exploiting the biodiversity of crops and their wild relatives is fundamental for maintaining and increasing food security. The species Cynara cardunculus includes three taxa: the globe artichoke, one of the most important Mediterranean vegetables, the leafy cardoon, and the wild cardoon. In this study, genotyping by sequencing (GBS) was successfull...
Data
Pie chart showing the frequency of substitution types of the identified SNPs. (PDF)
Data
Determination of the most probable K by means of ΔK statistics. The number of subpopulations (K) was identified based on maximum likelihood and ΔK values. (A) Whole dataset; (B) Globe artichoke dataset; (C) Cardoon dataset. (PDF)
Data
Neighbor-Joining tree obtained from SNP data on the wild and cultivated cardoon collection. Number on tree branches indicate bootstrap values (≥ 50). (TIF)
Data
List of the material analysed. All ˝varieties/ecotypes˝ tagged with ˝CC˝ represent cultivated cardoons, the ones tagged with ˝W˝ indicate wild cardoons, and the ones not tagged in this way are the globe artichokes. Within globe artichokes, CAT: ˝Catanesi˝; VIO: ˝Violetti˝; SPI: ˝Spinosi˝; ROM: ˝Romaneschi˝; OFF: off types;?: uncertain attribution....
Data
STRUCTURE analysis at K = 6 and K = 7. (A): complete C. cardunculus dataset; (B): globe artichoke dataset. Numbers on the y-axis show the subgroup membership. Genotype names are reported on the x axis. The colours of the bars indicate the groups identified through the STRUCTURE program. (TIF)
Data
STRUCTURE analysis of cardoon dataset. Numbers on the y-axis show the subgroup membership. Genotype names are reported on the x axis. The colours of the bars indicate the groups identified through the STRUCTURE program. (PDF)
Data
Genomic position and ID number of the Cynara cardunculus SNPs after filtering. Each worksheet contains the SNPs for a single dataset: 1. Total C. cardunculus; 2. Globe artichoke; 3. Cardoon. (XLSX)
Data
Bar charts describing the proportion of SNP heterozygous distribution in C. cardunculus before (A) and after (B) HWE filtering (p-value >10−6) (PDF)
Article
Full-text available
Almond (Prunus dulcis) is the principal Prunus species in which the consumed and thus commercially important part of the fruit is the kernel. As a result of continued selection, the vast majority of almonds have a non-bitter sweet kernel. However, in the field there are trees carrying bitter kernels, which are toxic to humans and, consequently, nee...
Article
Full-text available
The bitterness and toxicity of wild-type seeds of Prunoideae is due to the cyanogenic glucoside amygdalin. In cultivated almond (Prunus dulcis (Mill.) D.A. Webb), a dominant mutation at the Sk locus prevents amygdalin accumulation and thus results in edible sweet kernels. Here, we exploited sequence similarity and synteny between the genomes of alm...
Article
Full-text available
Kale (Brassica oleracea L. var. acephala) is a widely appreciated vegetable with a century-old history of cultivation in Italy. The present study was addressed to the collection and characterization of kale germplasm traditionally cultivated in Apulia, Southern Italy, nowadays at risk of genetic erosion. In total, nineteen Apulian kale accessions w...
Article
In contrast to other fruit crops, olive (Olea europaea) production is based mainly on traditional, locally selected cultivars. The world olive germplasm contains more than 2600 different cultivars, but olive genetic resources are poorly exploited and studied. Increasing our knowledge on olive tree genetics is a crucial step for breeding purposes an...
Article
Powdery mildew of pea is caused by Erysiphe pisi DC and is a serious threat to pea (Pisum sativum L.) production throughout much of the world. Development and utilization of genetic resistance to powdery mildew is considered an effective and sustainable strategy to manage this disease. One gene, er1, conferring powdery mildew resistance, was previo...
Article
Full-text available
Specific syntaxins, such as Arabidopsis AtPEN1 and its barley ortholog ROR2, play a major role in plant defense against powdery mildews. Indeed, the impairment of these genes results in increased fungal penetration in both host and non-host interactions. In this study, a genome-wide survey allowed the identification of 21 tomato syntaxins. Two of t...
Article
Full-text available
The accurate description of plant biodiversity is of utmost importance to efficiently address efforts in conservation genetics and breeding. Herein, we report the successful application of a geno-typing-by-sequencing (GBS) approach in chickpea (Cicer arieti-num L.), resulting in the characterization of a cultivated germplasm collection with 3187 hi...
Article
Full-text available
Eggplant (Solanum melongena L.) is one of the most important vegetables among the Solanaceae and can be a host to fungal species causing powdery mildew (PM) disease. Specific homologs of the plant Mildew Locus O (MLO) gene family are PM susceptibility factors, as their loss of function results in a recessive form of resistance known as mlo resistan...
Article
Full-text available
Enzymatic browning is a colour reaction occurring in plants, including cereals, fruit and horticultural crops, due to oxidation during postharvest processing and storage. This has a negative impact on the colour, flavour, nutritional properties and shelf life of food products. Browning is usually caused by polyphenol oxidases (PPOs), following cell...
Article
Full-text available
Background: Melon (Cucumis melo L.) is one of the most important horticultural species, which includes several taxonomic groups. With the advent of next-generation sequencing, single nucleotide polymorphism (SNP) markers are widely used in the study of genetic diversity and genomics. Results: We report the first successful application of genotyp...
Article
Full-text available
Chickpea (Cicer arietinum L.) is one of the most important legumes worldwide. We addressed this study to the genetic characterization of a germplasm collection from main chickpea growing countries. Several Italian traditional landraces at risk of genetic erosion were included in the analysis. Twenty-two simple sequence repeat (SSR) markers, widely...
Article
Full-text available
Powdery mildew (PM) is a widespread plant disease of temperate climates caused by ascomycete fungi of the order Erysiphales. PM is an important agricultural issue since it can cause significant economic losses. Specific members of the MLO gene family act as susceptibility factors towards the PM disease. A step towards the stability of crop producti...
Article
Full-text available
Crenate broomrape (Orobanche crenata Forsk.) is a root parasitic weed severely threatening the cultivation of pea (Pisum sativum L.) in Mediterranean agricultural settings. We recently characterized a pea line highly resistant to O. crenata, named ROR12. Analysis of root exudates indi- cated that ROR12 resistance is possibly due to lower exu- datio...
Article
Full-text available
Crenate broomrape (Orobanche crenata Forsk.) is a devastating parasitic weed threatening the cultivation of legumes around the Mediterranean and in theMiddle East. So far, only moderate levels of resistance were reported to occur in pea (Pisum sativum L.) natural germplasm, and most commercial cultivars are prone to severe infestation. Here, we des...
Article
Full-text available
The MLO (Mildew Locus O) gene family encodes plant-specific proteins containing seven transmembrane domains and likely acting in signal transduction in a calcium and calmodulin dependent manner. Some members of the MLO family are susceptibility factors towards fungi causing the powdery mildew disease. In tomato, for example, the loss-of-function of...
Article
Full-text available
The powdery mildew disease affects thousands of plant species and arguably represents the major fungal threat for many Cucurbitaceae crops, including melon (Cucumis melo L.), watermelon (Citrullus lanatus L.) and zucchini (Cucurbita pepo L.). Several studies revealed that specific members of the Mildew Locus O (MLO) gene family act as powdery milde...