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Francisco FO, Santiago LR, Mizusawa YM, Oldroyd BP, Arias MC. Population structuring of the ubiquitous stingless bee Tetragonisca angustula in southern Brazil as revealed by microsatellite and mitochondrial markers. Insect Sci 2017; 24:877-890. [PMID: 27334308 DOI: 10.1111/1744-7917.12371] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Revised: 04/27/2016] [Accepted: 05/05/2016] [Indexed: 06/06/2023]
Abstract
Tetragonisca angustula is one of the most widespread stingless bees in the Neotropics. This species swarms frequently and is extremely successful in urban environments. In addition, it is one of the most popular stingless bee species for beekeeping in Latin America, so nest transportation and trading is common. Nest transportation can change the genetic structure of the host population, reducing inbreeding and increasing homogenization. Here, we evaluate the genetic structure of 17 geographic populations of T. angustula in southern Brazil to quantify the level of genetic differentiation between populations. Analyses were conducted on partially sequenced mitochondrial genes and 11 microsatellite loci of 1002 workers from 457 sites distributed on the mainland and on 3 islands. Our results show that T. angustula populations are highly differentiated as demonstrated by mitochondrial DNA (mtDNA) and microsatellite markers. Of 73 haplotypes, 67 were population-specific. MtDNA diversity was low in 9 populations but microsatellite diversity was moderate to high in all populations. Microsatellite data suggest 10 genetic clusters and low level of gene flow throughout the studied area. However, physical barriers, such as rivers and mountain ranges, or the presence or absence of forest appear to be unrelated to population clusters. Factors such as low dispersal, different ecological conditions, and isolation by distance are most likely shaping the population structure of this species. Thus far, nest transportation has not influenced the general population structure in the studied area. However, due to the genetic structure we found, we recommend that nest transportation should only occur within and between populations that are genetically similar.
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Affiliation(s)
- Flávio O Francisco
- Departamento de Genética e Biologia Evolutiva, Instituto de Biociências, Universidade de São Paulo, Rua do Matão 277 - sala 320, São Paulo, SP, Brazil
- Behaviour and Genetics of Social Insects Lab, School of Life and Environmental Sciences A12, University of Sydney, Sydney, NSW, Australia
| | - Leandro R Santiago
- Departamento de Genética e Biologia Evolutiva, Instituto de Biociências, Universidade de São Paulo, Rua do Matão 277 - sala 320, São Paulo, SP, Brazil
| | - Yuri M Mizusawa
- Departamento de Genética e Biologia Evolutiva, Instituto de Biociências, Universidade de São Paulo, Rua do Matão 277 - sala 320, São Paulo, SP, Brazil
| | - Benjamin P Oldroyd
- Behaviour and Genetics of Social Insects Lab, School of Life and Environmental Sciences A12, University of Sydney, Sydney, NSW, Australia
| | - Maria C Arias
- Departamento de Genética e Biologia Evolutiva, Instituto de Biociências, Universidade de São Paulo, Rua do Matão 277 - sala 320, São Paulo, SP, Brazil
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Mornkham T, Wangsomnuk PP, Mo XC, Francisco FO, Gao LZ, Kurzweil H. Development and characterization of novel EST-SSR markers and their application for genetic diversity analysis of Jerusalem artichoke (Helianthus tuberosus L.). Genet Mol Res 2016; 15:gmr-15-gmr15048857. [PMID: 27813587 DOI: 10.4238/gmr15048857] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
Jerusalem artichoke (Helianthus tuberosus L.) is a perennial tuberous plant and a traditional inulin-rich crop in Thailand. It has become the most important source of inulin and has great potential for use in chemical and food industries. In this study, expressed sequence tag (EST)-based simple sequence repeat (SSR) markers were developed from 40,362 Jerusalem artichoke ESTs retrieved from the NCBI database. Among 23,691 non-redundant identified ESTs, 1949 SSR motifs harboring 2 to 6 nucleotides with varied repeat motifs were discovered from 1676 assembled sequences. Seventy-nine primer pairs were generated from EST sequences harboring SSR motifs. Our results show that 43 primers are polymorphic for the six studied populations, while the remaining 36 were either monomorphic or failed to amplify. These 43 SSR loci exhibited a high level of genetic diversity among populations, with allele numbers varying from 2 to 7, with an average of 3.95 alleles per loci. Heterozygosity ranged from 0.096 to 0.774, with an average of 0.536; polymorphic index content ranged from 0.096 to 0.854, with an average of 0.568. Principal component analysis and neighbor-joining analysis revealed that the six populations could be divided into six clusters. Our results indicate that these newly characterized EST-SSR markers may be useful in the exploration of genetic diversity and range expansion of the Jerusalem artichoke, and in cross-species application for the genus Helianthus.
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Affiliation(s)
- T Mornkham
- Department of Biology, Faculty of Science, Khon Kaen University, Khon Kaen, Thailand
| | - P P Wangsomnuk
- Department of Biology, Faculty of Science, Khon Kaen University, Khon Kaen, Thailand
| | - X C Mo
- Department of Life Science and Technology, Lijiang Teachers College, Lijiang, Yunnan, China
| | - F O Francisco
- Departamento de Genética e Biologia Evolutiva, Instituto de Biociências, Universidade de São Paulo, São Paulo, SP, Brasil
| | - L Z Gao
- Plant Germplasm and Genomics Center, Germplasm Bank of Wild Species in Southwest China, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, China
| | - H Kurzweil
- Herbarium, Singapore Botanic Gardens, National Parks Board, Singapore
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Jaffé R, Pope N, Acosta AL, Alves DA, Arias MC, De la Rúa P, Francisco FO, Giannini TC, González-Chaves A, Imperatriz-Fonseca VL, Tavares MG, Jha S, Carvalheiro LG. Beekeeping practices and geographic distance, not land use, drive gene flow across tropical bees. Mol Ecol 2016; 25:5345-5358. [PMID: 27662098 DOI: 10.1111/mec.13852] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2016] [Revised: 09/02/2016] [Accepted: 09/15/2016] [Indexed: 02/05/2023]
Abstract
Across the globe, wild bees are threatened by ongoing natural habitat loss, risking the maintenance of plant biodiversity and agricultural production. Despite the ecological and economic importance of wild bees and the fact that several species are now managed for pollination services worldwide, little is known about how land use and beekeeping practices jointly influence gene flow. Using stingless bees as a model system, containing wild and managed species that are presumed to be particularly susceptible to habitat degradation, here we examine the main drivers of tropical bee gene flow. We employ a novel landscape genetic approach to analyse data from 135 populations of 17 stingless bee species distributed across diverse tropical biomes within the Americas. Our work has important methodological implications, as we illustrate how a maximum-likelihood approach can be applied in a meta-analysis framework to account for multiple factors, and weight estimates by sample size. In contrast to previously held beliefs, gene flow was not related to body size or deforestation, and isolation by geographic distance (IBD) was significantly affected by management, with managed species exhibiting a weaker IBD than wild ones. Our study thus reveals the critical importance of beekeeping practices in shaping the patterns of genetic differentiation across bee species. Additionally, our results show that many stingless bee species maintain high gene flow across heterogeneous landscapes. We suggest that future efforts to preserve wild tropical bees should focus on regulating beekeeping practices to maintain natural gene flow and enhancing pollinator-friendly habitats, prioritizing species showing a limited dispersal ability.
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Affiliation(s)
- Rodolfo Jaffé
- Vale Institute of Technology - Sustainable Development, Rua Boaventura da Silva 955, 66055-090, Belém, PA, Brazil. .,Department of Ecology, Universidade de São Paulo, Rua do Matão 321, 05508-090, São Paulo, SP, Brazil.
| | - Nathaniel Pope
- Department of Integrative Biology, University of Texas, 401 Biological Laboratories, Austin, TX, 78712, USA
| | - André L Acosta
- Department of Ecology, Universidade de São Paulo, Rua do Matão 321, 05508-090, São Paulo, SP, Brazil
| | - Denise A Alves
- Department of Entomology and Acarology, Luiz de Queiroz College of Agriculture, Universidade de São Paulo, Av Pádua Dias 11, 13418-900, Piracicaba, SP, Brazil
| | - Maria C Arias
- Department of Genetics and Evolutionary Biology, Universidade de São Paulo, Rua do Matão 321, 05508-090, São Paulo, SP, Brazil
| | - Pilar De la Rúa
- Department of Zoology and Physical Anthropology, Facultad de Veterinaria, Universidad de Murcia, 30100, Murcia, Spain
| | - Flávio O Francisco
- Department of Environmental Health, Harvard T.H. Chan School of Public Health, Boston, MA, 02115, USA
| | - Tereza C Giannini
- Vale Institute of Technology - Sustainable Development, Rua Boaventura da Silva 955, 66055-090, Belém, PA, Brazil.,Department of Ecology, Universidade de São Paulo, Rua do Matão 321, 05508-090, São Paulo, SP, Brazil
| | - Adrian González-Chaves
- Department of Ecology, Universidade de São Paulo, Rua do Matão 321, 05508-090, São Paulo, SP, Brazil
| | - Vera L Imperatriz-Fonseca
- Vale Institute of Technology - Sustainable Development, Rua Boaventura da Silva 955, 66055-090, Belém, PA, Brazil.,Department of Ecology, Universidade de São Paulo, Rua do Matão 321, 05508-090, São Paulo, SP, Brazil
| | - Mara G Tavares
- Department of General Biology, Federal University of Viçosa, Av. P H Rolfs, s/n, 36570-000, Viçosa, MG, Brazil
| | - Shalene Jha
- Department of Integrative Biology, University of Texas, 401 Biological Laboratories, Austin, TX, 78712, USA
| | - Luísa G Carvalheiro
- Department of Ecology, Universidade de Brasília, 70910-900, Brasília, DF, Brazil.,Centre for Ecology, Evolution and Environmental Changes (CE3C), Faculdade de Ciências, Universidade de Lisboa, 1749-016, Lisboa, Portugal
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Brito RM, O. Francisco F, Ho SYW, Oldroyd BP. Genetic architecture of theTetragonula carbonariaspecies complex of Australian stingless bees (Hymenoptera: Apidae: Meliponini). Biol J Linn Soc Lond 2014. [DOI: 10.1111/bij.12292] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Rute M. Brito
- Instituto de Genética e Bioquímica; Universidade Federal de Uberlândia; Av. Pará 1720, 2E sala 34 Uberlândia MG 38400-902 Brazil
- School of Biological Sciences; University of Sydney; Sydney NSW 2006 Australia
| | - Flávio O. Francisco
- School of Biological Sciences; University of Sydney; Sydney NSW 2006 Australia
- Departamento de Genética e Biologia Evolutiva, Instituto de Biociências; Universidade de São Paulo; Rua do Matão 277 - sala 320 São Paulo SP 05508-090 Brazil
| | - Simon Y. W. Ho
- School of Biological Sciences; University of Sydney; Sydney NSW 2006 Australia
| | - Benjamin P. Oldroyd
- School of Biological Sciences; University of Sydney; Sydney NSW 2006 Australia
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Abstract
The Y chromosomes of Drosophila melanogaster and D. simulans contain only a handful of protein-coding genes, which are related to sperm mobility and reproductive fitness. Despite low or absent protein coding polymorphism, the Drosophila Y chromosome has been associated with natural phenotypic variation, including variation in the expression of hundreds to thousands of genes located on autosomes and on the X chromosome. Polymorphisms present in the large blocks of heterochromatin and consisting of differences in the amounts and kinds of sequences for satellite DNA and transposable elements may be the source of this modulation. Here we review the evidence and discuss mechanisms for global epigenetic regulation by repetitious elements in the Y chromosome. We also discuss how the discovery of this new function impacts the current knowledge about Y chromosome origin, its current dynamics, and future fate.
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Affiliation(s)
- Flávio O Francisco
- Program in Molecular and Integrative Physiological Sciences, Department of Environmental Health, Harvard School of Public Health, Boston, MA 02115, USA
| | - Bernardo Lemos
- Program in Molecular and Integrative Physiological Sciences, Department of Environmental Health, Harvard School of Public Health, Boston, MA 02115, USA
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Arias MC, Arnoux E, Bell JJ, Bernadou A, Bino G, Blatrix R, Bourguet D, Carrea C, Clamens AL, Cunha HA, d'Alençon E, Ding Y, Djieto-Lordon C, Dubois MP, Dumas P, Eraud C, Faivre B, Francisco FO, Françoso E, Garcia M, Gardner JPA, Garnier S, Gimenez S, Gold JR, Harris DJ, He G, Hellemans B, Hollenbeck CM, Jing S, Kergoat GJ, Liu B, McDowell JR, McKey D, Miller TL, Newton E, Pagenkopp Lohan KM, Papetti C, Paterson I, Peccoud J, Peng X, Piatscheck F, Ponsard S, Reece KS, Reisser CMO, Renshaw MA, Ruzzante DE, Sauve M, Shields JD, Solé-Cava A, Souche EL, Van Houdt JKJ, Vasconcellos A, Volckaert FAM, Wang S, Xiao J, Yu H, Zane L, Zannato B, Zemlak TS, Zhang C, Zhao Y, Zhou X, Zhu L. Permanent genetic resources added to Molecular Ecology Resources Database 1 December 2011-31 January 2012. Mol Ecol Resour 2012; 12:570-2. [PMID: 22448966 DOI: 10.1111/j.1755-0998.2012.03133.x] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
This article documents the addition of 473 microsatellite marker loci and 71 pairs of single-nucleotide polymorphism (SNP) sequencing primers to the Molecular Ecology Resources Database. Loci were developed for the following species: Barteria fistulosa, Bombus morio, Galaxias platei, Hematodinium perezi, Macrocentrus cingulum Brischke (a.k.a. M. abdominalis Fab., M. grandii Goidanich or M. gifuensis Ashmead), Micropogonias furnieri, Nerita melanotragus, Nilaparvata lugens Stål, Sciaenops ocellatus, Scomber scombrus, Spodoptera frugiperda and Turdus lherminieri. These loci were cross-tested on the following species: Barteria dewevrei, Barteria nigritana, Barteria solida, Cynoscion acoupa, Cynoscion jamaicensis, Cynoscion leiarchus, Cynoscion nebulosus, Cynoscion striatus, Cynoscion virescens, Macrodon ancylodon, Menticirrhus americanus, Nilaparvata muiri and Umbrina canosai. This article also documents the addition of 116 sequencing primer pairs for Dicentrarchus labrax.
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