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Article ; Online: Investigating the genetic basis of salt-tolerance in common bean: a genome-wide association study at the early vegetative stage.

Raggi, Lorenzo / Caproni, Leonardo / Ciancaleoni, Simona / D'Amato, Roberto / Businelli, Daniela / Negri, Valeria

2024 Volume 14, Issue 1, Page(s) 5315

Abstract: Salinity poses a significant challenge to global crop productivity, affecting approximately 20% of cultivated and 33% of irrigated farmland, and this issue is on the rise. Negative impact of salinity on plant development and metabolism leads to ... ...

Abstract	Salinity poses a significant challenge to global crop productivity, affecting approximately 20% of cultivated and 33% of irrigated farmland, and this issue is on the rise. Negative impact of salinity on plant development and metabolism leads to physiological and morphological alterations mainly due to high ion concentration in tissues and the reduced water and nutrients uptake. Common bean (Phaseolus vulgaris L.), a staple food crop accounting for a substantial portion of consumed grain legumes worldwide, is highly susceptible to salt stress resulting in noticeable reduction in dry matter gain in roots and shoots even at low salt concentrations. In this study we screened a common bean panel of diversity encompassing 192 homozygous genotypes for salt tolerance at seedling stage. Phenotypic data were leveraged to identify genomic regions involved in salt stress tolerance in the species through GWAS. We detected seven significant associations between shoot dry weight and SNP markers. The candidate genes, in linkage with the regions associated to salt tolerance or harbouring the detected SNP, showed strong homology with genes known to be involved in salt tolerance in Arabidopsis. Our findings provide valuable insights onto the genetic control of salt tolerance in common bean and represent a first contribution to address the challenge of salinity-induced yield losses in this species and poses the ground to eventually breed salt tolerant common bean varieties.
MeSH term(s)	Salt Tolerance/genetics ; Phaseolus/genetics ; Genome-Wide Association Study ; Plant Breeding ; Vegetables ; Arabidopsis
Language	English
Publishing date	2024-03-04
Publishing country	England
Document type	Journal Article
ZDB-ID	2615211-3
ISSN	2045-2322 ; 2045-2322
ISSN (online)	2045-2322
ISSN	2045-2322
DOI	10.1038/s41598-024-55403-z
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: A method for obtaining flexible broccoli varieties for sustainable agriculture.

Ciancaleoni, Simona / Negri, Valeria

BMC genetics

2020 Volume 21, Issue 1, Page(s) 51

Abstract: Background: The use of high inputs in agriculture resulted in few varieties (hybrids and pure lines) used in all agricultural systems. Also varieties of vegetables, including broccoli, for organic and low-input agriculture, are almost exclusively ... ...

Abstract	Background: The use of high inputs in agriculture resulted in few varieties (hybrids and pure lines) used in all agricultural systems. Also varieties of vegetables, including broccoli, for organic and low-input agriculture, are almost exclusively hybrids, since there are very few specific breeding programs and varieties for sustainable agriculture systems. A strategy to overcome this issue is the adoption of specific breeding programs for developing heterogeneous varieties (i.e. synthetics, open pollinated varieties, composite cross populations and mixtures). In fact, heterogeneous varieties are able to evolve and adapt to specific agro-climatic conditions. The aim of this study was to develop a method (an Evolutionary Breeding Program, EBP) for obtaining heterogeneous varieties of broccoli and test its efficiency in developing highly diverse varieties, as needed in sustainable agriculture. A synthetic variety originated from a landrace was multiplied in different environments for 3 cycles and morpho-phenological and genetic diversity of the derived populations were assessed. Results: The presented results are the first and unique indication about the efficiency of a short-time EBP for an allogamous species like broccoli. Few morphological changes were observed among varieties multiplied in different environments with different agro-climatic conditions. This could be probably due to the initial genetic diversity of the landrace from which the populations were selected and also to the great plasticity of the crop. However, SSR data highlighted a genetic differentiation among populations multiplied for two/three years across Europe and in Central Italy, that was not so evident when considering morphological data only. Conclusions: Few years of multiplication in different environments resulted in genetically differentiated broccoli populations that nonetheless preserved the original genetic diversity and productivity level and appear to evolve in relationship to different environments: the applied EBP is useful for developing heterogeneous materials for sustainable agriculture.
MeSH term(s)	Agriculture/methods ; Brassica/genetics ; Climate ; Genetic Variation ; Genetics, Population ; Inbreeding ; Italy ; Microsatellite Repeats ; Plant Breeding ; Pollination
Language	English
Publishing date	2020-05-07
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	1471-2156
ISSN (online)	1471-2156
DOI	10.1186/s12863-020-00846-2
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Article: Development and Application of a Cleaved Amplified Polymorphic Sequence Marker (

Bongiorno, Giacomo / Di Noia, Annamaria / Ciancaleoni, Simona / Marconi, Gianpiero / Cassibba, Vincenzo / Albertini, Emidio

Plants (Basel, Switzerland)

2023 Volume 12, Issue 15

Abstract: Phytophthora ... ...

Abstract	Phytophthora capsici
Language	English
Publishing date	2023-07-25
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2704341-1
ISSN	2223-7747
ISSN	2223-7747
DOI	10.3390/plants12152757
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Article: Long-Term Effects of Amendment with Olive Mill Wastewater on Soil Chemical Properties, Microbial Community, and Olive Tree Vegetative and Productive Activities

Regni, Luca / Pezzolla, Daniela / Ciancaleoni, Simona / Marozzi, Giorgio / Albertini, Emidio / Gigliotti, Giovanni / Proietti, Primo

Agronomy. 2021 Dec. 16, v. 11, no. 12

2021

Abstract: The long-term effects of the olive mill wastewater (OMWW) spreading on soil chemical properties, microbial community, and olive tree parameters have been far poorly investigated. Therefore, this study aims to evaluate the effect of OMWW application on an ...

Abstract	The long-term effects of the olive mill wastewater (OMWW) spreading on soil chemical properties, microbial community, and olive tree parameters have been far poorly investigated. Therefore, this study aims to evaluate the effect of OMWW application on an olive orchard, and samples were collected at two different depths (0–20 cm and 20–40 cm) and 14 days, one year and two years from the end of the OMWW spreading on soil chemical characteristics and soil microbial structures. Variations of soil chemical parameters (pH, salinity, available P, and water-extractable organic C) were observed particularly at 14 days after spreading at both depths. All these parameters reached similar values to the soil after two years, except for available phosphorus. Firmicutes, Proteobacteria, and Actinobacteria are the most abundant phyla: only Firmicutes were negatively affected by the OMWW spreading after 14 days, suggesting that Gram-positive bacteria were probably negatively influenced by the addition of OMWW. The abundance of bacterial taxa in the soil is restored along time, except for the decrease of Firmicutes. This evidence suggests that the OMWW spreading in the long term does not affect the endemic soil bacterial community of the olive grove, as well as leaf net photosynthesis, the olive tree vegetative activity, yield, and fruits characteristics.
Keywords	Actinobacteria ; Firmicutes ; Olea europaea ; Proteobacteria ; agronomy ; leaves ; microbial communities ; olive mill wastewater ; olives ; orchards ; pH ; phosphorus ; photosynthesis ; salinity ; soil bacteria
Language	English
Dates of publication	2021-1216
Publishing place	Multidisciplinary Digital Publishing Institute
Document type	Article
ZDB-ID	2607043-1
ISSN	2073-4395
ISSN	2073-4395
DOI	10.3390/agronomy11122562
Database	NAL-Catalogue (AGRICOLA)

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Article: A new list and prioritization of wild plants of socioeconomic interest in Italy: toward a conservation strategy

Ciancaleoni, Simona / Raggi, Lorenzo / Barone, Giulio / Donnini, Domizia / Gigante, Daniela / Domina, Gianniantonio / Negri, Valeria

Agroecology and sustainable food systems. 2021 Oct. 21, v. 45, no. 9

2021

Abstract: Wild harvested plants (WHP) and crop wild relatives (CWR), part of the segment of natural diversity that is collectively known as ‘Plant Genetic Resources’, have great socioeconomic importance for humans because they are used either directly or in crop ... ...

Abstract	Wild harvested plants (WHP) and crop wild relatives (CWR), part of the segment of natural diversity that is collectively known as ‘Plant Genetic Resources’, have great socioeconomic importance for humans because they are used either directly or in crop breeding. In order to lay down a solid base for constructing conservation strategies for Italy, an updated annotated list of CWR and WHP was produced for the country including information on known uses. Taxa included in the list were then prioritized using a pragmatic approach based on their value, native status, and need of protection or monitoring.
Keywords	agroecology ; prioritization ; Italy
Language	English
Dates of publication	2021-1021
Size	p. 1300-1326.
Publishing place	Taylor & Francis
Document type	Article
ZDB-ID	2687596-2
ISSN	2168-3573 ; 2168-3565
ISSN (online)	2168-3573
ISSN	2168-3565
DOI	10.1080/21683565.2021.1917469
Database	NAL-Catalogue (AGRICOLA)

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Article: Assessment of spatial–temporal variation in natural populations of Brassica incana in south Italy: implications for conservation

Ciancaleoni, Simona / Lorenzo Raggi / Valeria Negri

Plant systematics and evolution. 2018 June, v. 304, no. 6

2018

Abstract: Brassica incana is a secondary-gene pool wild relative of Brassica oleracea. Twenty-two B. incana populations are recorded in Italy, where the species has recently been pointed out as in priority need of conservation. While data on the spatial and ... ...

Abstract	Brassica incana is a secondary-gene pool wild relative of Brassica oleracea. Twenty-two B. incana populations are recorded in Italy, where the species has recently been pointed out as in priority need of conservation. While data on the spatial and temporal variation of B. incana Italian populations are completely lacking, this information is useful in conservation planning for this species. Three populations from the Sorrento peninsula and from the islands of Ischia and Capri, collected in 1984 and 2012, were characterised for 12 morpho-phenological and 21 genetic traits to assess their spatial–temporal variation. The populations were quite different for morpho-phenological and genetic traits. Spatial differentiation was high and easily explained by the isolation. Temporal differentiation between the Sorrento and Ischia populations was high and explained by a reduction in the population census across time, while it was not significant between the two Capri accessions as such pointing to a major effect of genetic drift. Numerical dimension is extremely relevant in evaluating conservation priorities since it has a major impact on population dynamics over time. The Sorrento and Ischia populations are under threat and urgently need conservation actions, suggesting an alarming scenario for the survival of other crop wild relative populations which are similar in census. Our data also show that, in an allogamous and self-incompatible species like B. incana, populations of 100–200 individuals maintain high allelic diversity. According to obtained results, natural populations of species with similar reproductive system and census can be considered at low risk of genetic erosion.
Keywords	alleles ; allelic variation ; Brassica incana ; Brassica oleracea ; genetic drift ; genetic traits ; islands ; planning ; population dynamics ; reproductive system ; risk ; spatial variation ; temporal variation ; wild relatives ; Italy
Language	English
Dates of publication	2018-06
Size	p. 731-745.
Publishing place	Springer Vienna
Document type	Article
ZDB-ID	1463027-8
ISSN	1615-6110 ; 0378-2697
ISSN (online)	1615-6110
ISSN	0378-2697
DOI	10.1007/s00606-018-1505-4
Database	NAL-Catalogue (AGRICOLA)

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Article: Genetic distinctiveness of a Protected Geographic Indication lentil landrace from the Umbria region, Italy, over 20 years

Ceccobelli, Simone / Ciancaleoni, Simona / Lancioni, Hovirag / Veronesi, Fabio / Albertini, Emidio / Rosellini, Daniele

Genetic resources and crop evolution. 2019 Oct., v. 66, no. 7

2019

Abstract: Traceability of local and typical food products is essential for market protection and consumer trust. DNA analysis is the most dependable tool to identify the biological materials present in a food product. In this work, we molecularly characterized an ... ...

Abstract	Traceability of local and typical food products is essential for market protection and consumer trust. DNA analysis is the most dependable tool to identify the biological materials present in a food product. In this work, we molecularly characterized an important local product of the Umbria region, a lentil landrace named after the village Castelluccio di Norcia, in the province of Perugia, Italy, awarded the Protected Geographic Indication (PGI) “Lenticchia di Castelluccio di Norcia” by the European Union in 1997. Four accessions from a 1994 collection were compared with accessions acquired in 2016 at local retailers, in comparison with two commercial samples from grocery stores and two foreign varieties. Twelve simple sequence repeat (SSR) molecular markers allowed to clearly establish the genetic distinctiveness of local lentil. High allelic diversity and very low heterozygosity were observed in Castelluccio samples. The 1994 materials were closely related, as shown by pairwise Fst and by Principal Coordinates Analysis. Little divergence between 1994 and 2016 samples was found, possibly due to 20 years of cultivation in different farms, but one of the 2016 samples was unrelated, as were the two commercial samples. The genetic identity of the Castelluccio landrace is still preserved locally, but may be put at risk by the presence on the market of unrelated materials labeled as PGI. In Castelluccio accessions, as many as 42 private SSR alleles were documented, which can be implemented to develop molecular traceability tests.
Keywords	DNA ; European Union ; allelic variation ; evolution ; foods ; heterozygosity ; landraces ; lentils ; microsatellite repeats ; risk ; traceability ; villages ; Italy
Language	English
Dates of publication	2019-10
Size	p. 1483-1493.
Publishing place	Springer Netherlands
Document type	Article
ZDB-ID	1134125-7
ISSN	0925-9864
ISSN	0925-9864
DOI	10.1007/s10722-019-00799-1
Database	NAL-Catalogue (AGRICOLA)

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Article: Broccoli yield response to environmental factors in sustainable agriculture

Ciancaleoni, Simona / Andrea Onofri / Renzo Torricelli / Valeria Negri

European journal of agronomy. 2016 Jan., v. 72

2016

Abstract: A reduced rank factorial regression was carried out to assess effects of environmental factors in sustainable agriculture on yield performances of homogeneous (one F1 hybrid) and heterogeneous (one landrace, LR, and two derived synthetics) broccoli ... ...

Abstract	A reduced rank factorial regression was carried out to assess effects of environmental factors in sustainable agriculture on yield performances of homogeneous (one F1 hybrid) and heterogeneous (one landrace, LR, and two derived synthetics) broccoli varieties under Organic Agriculture (OA) and Low-Input (LI) management systems. The study was motivated by a general lack of data on environmental variables that affect broccoli yield. Agronomic trials were carried out for three years in three locations in Central Italy with different pedo-climatic conditions. Reduced rank factorial regression was efficient in summarising the effect of environmental variables on the pattern of Genotype (G)×Environment (E) interactions.Nitrogen content, together with rainfall, minimum temperature and clay content, were the most important environmental variables and explained 91% of the variability in the G×E interaction matrix. A mild and nitrogen-rich environment allowed good performances to be achieved with all genotypes and maximised the F1 hybrid yield. The synthetic varieties and the LR tolerated a high clay content, even though broccoli crops prefer, in general, alluvial, deep and permeable soils without water stagnation. This suggests that the above mentioned varieties are the best materials for these yield-limiting environments, possibly because they were selected under those conditions.The results highlight the needs (i) to carry out further agronomy research aimed at identifying the most suitable areas and optimizing the control of environmental variables in OA and LI (in particular, type, quantity and time of application of N fertilization), (ii) to develop specific breeding programs for OA and LI and, while carrying them out, (iii) to evaluate the responses of the genotypes under selection to limiting environmental variables.
Keywords	agronomy ; application timing ; breeding ; broccoli ; clay fraction ; crop yield ; crops ; environmental factors ; genotype ; genotype-environment interaction ; hybrids ; landraces ; management systems ; nitrogen fertilizers ; organic production ; rain ; sustainable agriculture ; synthetic populations ; synthetic products ; temperature ; Italy
Language	English
Dates of publication	2016-01
Size	p. 1-9.
Publishing place	Elsevier B.V.
Document type	Article
ZDB-ID	1157136-6
ISSN	1873-7331 ; 1161-0301
ISSN (online)	1873-7331
ISSN	1161-0301
DOI	10.1016/j.eja.2015.09.009
Database	NAL-Catalogue (AGRICOLA)

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Article: Performance and stability of homogeneous and heterogeneous broccoli (Brassica oleracea L. var. italica Plenck) varieties in organic and low-input conditions

Torricelli, Renzo / Ciancaleoni, Simona / Negri, Valeria

Euphytica. 2014 Oct., v. 199, no. 3

2014

Abstract: Organic (OA) and low-input (LI) farming rely on genotypes with high adaptability that maintain good performance over a broad range of agronomic and environmental conditions. Two synthetic varieties of Brassica oleracea var. italica Plenck (broccoli) were ...

Abstract	Organic (OA) and low-input (LI) farming rely on genotypes with high adaptability that maintain good performance over a broad range of agronomic and environmental conditions. Two synthetic varieties of Brassica oleracea var. italica Plenck (broccoli) were developed from a landrace. Their performance and stability under LI and OA farming conditions were then assessed and compared to a F1 hybrid variety. Identical experiments were carried out over a period of 2� years in three locations in Italy having different management and pedo-climatic conditions. Initially, an analysis of variance, carried out using a linear mixed model (LMM), with “Genotype” (“G”) and “Location” (“L”) as fixed factors and “Year” (“Y”) as a random factor, showed that the “Genotype” effect was significant for days to heading (DH), head number (HN), plant diameter (PD), plant vigour (PV) and plant height (PH). The “L” effect was significant for PD and PV. “G� ×� L” interaction was significant for DH, PV and for yield. To obtain a better understanding of entry performances across years and locations, each location—year combination was considered as “Environment” and the additive main effects and multiplicative interaction analysis was used to dissect the “G� ×� E” interaction. Synthetic varieties had good performances and always had a higher stability than the F1 hybrid. The data discussed in this study suggest that heterogeneous varieties developed from adapted materials are suitable for OA and LI because of their stability.
Keywords	Brassica oleracea var. italica ; analysis of variance ; broccoli ; environmental factors ; farming systems ; genotype ; heading ; hybrids ; landraces ; statistical models ; synthetic populations ; vigor ; Italy
Language	English
Dates of publication	2014-10
Size	p. 385-395.
Publishing place	Springer-Verlag
Document type	Article
ZDB-ID	216568-5
ISSN	0014-2336
ISSN	0014-2336
DOI	10.1007/s10681-014-1139-8
Database	NAL-Catalogue (AGRICOLA)

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Article: Genetic outcomes from a farmer-assisted landrace selection programme to develop a synthetic variety of broccoli

Ciancaleoni, Simona / Negri, Valeria / Raggi, Lorenzo

Plant genetic resources. 2014 Dec., v. 12, no. 3

2014

Abstract: To develop synthetic varieties (Syn) of broccoli for organic agriculture, we initiated a breeding programme from a landrace (LR). A Syn was obtained through a farmer-assisted selection programme that mirrors the original LR. The diversity level of the ... ...

Abstract	To develop synthetic varieties (Syn) of broccoli for organic agriculture, we initiated a breeding programme from a landrace (LR). A Syn was obtained through a farmer-assisted selection programme that mirrors the original LR. The diversity level of the Syn was assessed using 14 putatively neutral microsatellite markers (simple sequence repeats (SSR)) and seven SSR related to genes involved in flowering control. Four commercial F1 hybrids were also assessed. Despite the strict selection procedure applied by the farmer to reproduce the LR annually and to obtain the Syn, the detected diversity level was high and similar to that of non-selected LRs. The possible reasons for these genetic outcomes (i.e. SSR position in the genome and farmer selection methods) are discussed here.
Keywords	broccoli ; farmers ; flowering ; genes ; genetic markers ; genetic variation ; hybrids ; landraces ; microsatellite repeats ; organic production ; selection methods ; synthetic populations
Language	English
Dates of publication	2014-12
Size	p. 349-352.
Publishing place	Cambridge University Press
Document type	Article
ZDB-ID	2128626-7
ISSN	1479-263X ; 1479-2621
ISSN (online)	1479-263X
ISSN	1479-2621
DOI	10.1017/S1479262113000592
Database	NAL-Catalogue (AGRICOLA)

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