Cross-species amplification of nuclear est-microsatellites developed for other pinus species in pinus nigra
2015
Аутори
Sarac, ZoricaAleksić, Jelena M.
Dodos, Tanja
Rajcević, Nemanja
Bojović, Srdjan
Marin, Petar D.
Чланак у часопису (Објављена верзија)
Метаподаци
Приказ свих података о документуАпстракт
Due to the current lack of nuclear microsatellites (simple sequence repeats SSRs) specifically developed for Pinus nigra, an important European coniferous species, we cross-species amplified 12 EST-SSRs (expressed sequence tagged SSRs) developed for other Pinus species in P. nigra in order to delineate loci which can be used for assessing levels of genetic diversity and genetic structuring in this species. We amplified these loci in individuals from seven populations from the central Balkans representing four recognized infraspecific taxa of P. nigra (ssp. nigra, var. gocensis, ssp. pallasiana, and var. banatica). Contrary to expectations on high transferability of EST-SSRs into related species, only three out of 12 tested loci were successfully amplified in P. nigra, but they displayed lack/low levels of polymorphism or generated multilocus amplification products. Thus, our estimates on levels of genetic diversity (HE = 0.183) and genetic differentiation (F-ST = 0.007) were based on v...ariability of a single locus harboring four alleles only and they should be taken with cautions. Our study highlights the need for the development of high-resolution molecular markers, such as co-dominant genic or genomic SSRs or predominantly biallelic SNPs, or utilization of anonymous dominant markers, such as AFLPs, for genotyping in P. nigra.
Кључне речи:
the Balkans / Pinus nigra / genetic diversity / EST-SSRs / cross-species amplificationИзвор:
Genetika-Belgrade, 2015, 47, 1, 205-217Издавач:
- Društvo genetičara Srbije, Beograd
Финансирање / пројекти:
- Микроморфолошка, фитохемијска и молекуларна истраживања биљака - систематски, еколошки и применљиви аспекти (RS-MESTD-Basic Research (BR or ON)-173029)
- Биодиверзитет биљног света Србије и Балканског полуострва - процена, одрживо коришћење и заштита (RS-MESTD-Basic Research (BR or ON)-173030)
DOI: 10.2298/GENSR1501205S
ISSN: 0534-0012
WoS: 000355248900018
Scopus: 2-s2.0-84929318585
Институција/група
Institut za molekularnu genetiku i genetičko inženjerstvoTY - JOUR AU - Sarac, Zorica AU - Aleksić, Jelena M. AU - Dodos, Tanja AU - Rajcević, Nemanja AU - Bojović, Srdjan AU - Marin, Petar D. PY - 2015 UR - https://imagine.imgge.bg.ac.rs/handle/123456789/815 AB - Due to the current lack of nuclear microsatellites (simple sequence repeats SSRs) specifically developed for Pinus nigra, an important European coniferous species, we cross-species amplified 12 EST-SSRs (expressed sequence tagged SSRs) developed for other Pinus species in P. nigra in order to delineate loci which can be used for assessing levels of genetic diversity and genetic structuring in this species. We amplified these loci in individuals from seven populations from the central Balkans representing four recognized infraspecific taxa of P. nigra (ssp. nigra, var. gocensis, ssp. pallasiana, and var. banatica). Contrary to expectations on high transferability of EST-SSRs into related species, only three out of 12 tested loci were successfully amplified in P. nigra, but they displayed lack/low levels of polymorphism or generated multilocus amplification products. Thus, our estimates on levels of genetic diversity (HE = 0.183) and genetic differentiation (F-ST = 0.007) were based on variability of a single locus harboring four alleles only and they should be taken with cautions. Our study highlights the need for the development of high-resolution molecular markers, such as co-dominant genic or genomic SSRs or predominantly biallelic SNPs, or utilization of anonymous dominant markers, such as AFLPs, for genotyping in P. nigra. PB - Društvo genetičara Srbije, Beograd T2 - Genetika-Belgrade T1 - Cross-species amplification of nuclear est-microsatellites developed for other pinus species in pinus nigra EP - 217 IS - 1 SP - 205 VL - 47 DO - 10.2298/GENSR1501205S ER -
@article{ author = "Sarac, Zorica and Aleksić, Jelena M. and Dodos, Tanja and Rajcević, Nemanja and Bojović, Srdjan and Marin, Petar D.", year = "2015", abstract = "Due to the current lack of nuclear microsatellites (simple sequence repeats SSRs) specifically developed for Pinus nigra, an important European coniferous species, we cross-species amplified 12 EST-SSRs (expressed sequence tagged SSRs) developed for other Pinus species in P. nigra in order to delineate loci which can be used for assessing levels of genetic diversity and genetic structuring in this species. We amplified these loci in individuals from seven populations from the central Balkans representing four recognized infraspecific taxa of P. nigra (ssp. nigra, var. gocensis, ssp. pallasiana, and var. banatica). Contrary to expectations on high transferability of EST-SSRs into related species, only three out of 12 tested loci were successfully amplified in P. nigra, but they displayed lack/low levels of polymorphism or generated multilocus amplification products. Thus, our estimates on levels of genetic diversity (HE = 0.183) and genetic differentiation (F-ST = 0.007) were based on variability of a single locus harboring four alleles only and they should be taken with cautions. Our study highlights the need for the development of high-resolution molecular markers, such as co-dominant genic or genomic SSRs or predominantly biallelic SNPs, or utilization of anonymous dominant markers, such as AFLPs, for genotyping in P. nigra.", publisher = "Društvo genetičara Srbije, Beograd", journal = "Genetika-Belgrade", title = "Cross-species amplification of nuclear est-microsatellites developed for other pinus species in pinus nigra", pages = "217-205", number = "1", volume = "47", doi = "10.2298/GENSR1501205S" }
Sarac, Z., Aleksić, J. M., Dodos, T., Rajcević, N., Bojović, S.,& Marin, P. D.. (2015). Cross-species amplification of nuclear est-microsatellites developed for other pinus species in pinus nigra. in Genetika-Belgrade Društvo genetičara Srbije, Beograd., 47(1), 205-217. https://doi.org/10.2298/GENSR1501205S
Sarac Z, Aleksić JM, Dodos T, Rajcević N, Bojović S, Marin PD. Cross-species amplification of nuclear est-microsatellites developed for other pinus species in pinus nigra. in Genetika-Belgrade. 2015;47(1):205-217. doi:10.2298/GENSR1501205S .
Sarac, Zorica, Aleksić, Jelena M., Dodos, Tanja, Rajcević, Nemanja, Bojović, Srdjan, Marin, Petar D., "Cross-species amplification of nuclear est-microsatellites developed for other pinus species in pinus nigra" in Genetika-Belgrade, 47, no. 1 (2015):205-217, https://doi.org/10.2298/GENSR1501205S . .