Comparison of similarity coefficients used for cluster analysis based on SSR markers in sister line wheat cultivars
Апстракт
The objective of this study was to compared fourteen different similarity coefficients and their influence in sister line wheat cultivars clustering. Seventeen sister cultivars developed from two crosses were used and fingerprinted with 19 wheat microsatellite markers. Comparisons among the similarity coefficients were made using the Sperman correlation analysis, dendogram evaluation (visual inspection and consensus fork index CIc), projection efficiency in a two-dimensional space, and groups formed by the Tocher optimization procedure. The Sperman correlation coefficients among the fourteen similarity coefficients were all high showing a strong association between them. The correlation coefficient between Dice and Kulczinski and Ochiai I as well as between Hamann and Simple matching and between Kulczinski and Ochiai I was equal to 1. Although visual estimation of the dendograms shows almost identical clustering structures, CIc indexes indicate that all coefficients are not identical.
Кључне речи:
Similarity coefficient / Cluster analysis / SSR markers / Sperman correlation / Consensus fork index / Distortion degree / Stress valueИзвор:
Genetika-Belgrade, 2016, 48, 1, 219-232Издавач:
- Društvo genetičara Srbije, Beograd
Финансирање / пројекти:
- Савремено оплемењивање стрних жита за садашње и будуће потребе (RS-MESTD-Technological Development (TD or TR)-31066)
DOI: 10.2298/GENSR1601219D
ISSN: 0534-0012
WoS: 000376744800019
Scopus: 2-s2.0-84971300010
Колекције
Институција/група
FiVeRTY - JOUR AU - Denčić, Srbislav AU - Depauw, Ron AU - Momčilović, Vojislava AU - Aćin, Vladimir PY - 2016 UR - http://fiver.ifvcns.rs/handle/123456789/1547 AB - The objective of this study was to compared fourteen different similarity coefficients and their influence in sister line wheat cultivars clustering. Seventeen sister cultivars developed from two crosses were used and fingerprinted with 19 wheat microsatellite markers. Comparisons among the similarity coefficients were made using the Sperman correlation analysis, dendogram evaluation (visual inspection and consensus fork index CIc), projection efficiency in a two-dimensional space, and groups formed by the Tocher optimization procedure. The Sperman correlation coefficients among the fourteen similarity coefficients were all high showing a strong association between them. The correlation coefficient between Dice and Kulczinski and Ochiai I as well as between Hamann and Simple matching and between Kulczinski and Ochiai I was equal to 1. Although visual estimation of the dendograms shows almost identical clustering structures, CIc indexes indicate that all coefficients are not identical. PB - Društvo genetičara Srbije, Beograd T2 - Genetika-Belgrade T1 - Comparison of similarity coefficients used for cluster analysis based on SSR markers in sister line wheat cultivars EP - 232 IS - 1 SP - 219 VL - 48 DO - 10.2298/GENSR1601219D ER -
@article{ author = "Denčić, Srbislav and Depauw, Ron and Momčilović, Vojislava and Aćin, Vladimir", year = "2016", abstract = "The objective of this study was to compared fourteen different similarity coefficients and their influence in sister line wheat cultivars clustering. Seventeen sister cultivars developed from two crosses were used and fingerprinted with 19 wheat microsatellite markers. Comparisons among the similarity coefficients were made using the Sperman correlation analysis, dendogram evaluation (visual inspection and consensus fork index CIc), projection efficiency in a two-dimensional space, and groups formed by the Tocher optimization procedure. The Sperman correlation coefficients among the fourteen similarity coefficients were all high showing a strong association between them. The correlation coefficient between Dice and Kulczinski and Ochiai I as well as between Hamann and Simple matching and between Kulczinski and Ochiai I was equal to 1. Although visual estimation of the dendograms shows almost identical clustering structures, CIc indexes indicate that all coefficients are not identical.", publisher = "Društvo genetičara Srbije, Beograd", journal = "Genetika-Belgrade", title = "Comparison of similarity coefficients used for cluster analysis based on SSR markers in sister line wheat cultivars", pages = "232-219", number = "1", volume = "48", doi = "10.2298/GENSR1601219D" }
Denčić, S., Depauw, R., Momčilović, V.,& Aćin, V.. (2016). Comparison of similarity coefficients used for cluster analysis based on SSR markers in sister line wheat cultivars. in Genetika-Belgrade Društvo genetičara Srbije, Beograd., 48(1), 219-232. https://doi.org/10.2298/GENSR1601219D
Denčić S, Depauw R, Momčilović V, Aćin V. Comparison of similarity coefficients used for cluster analysis based on SSR markers in sister line wheat cultivars. in Genetika-Belgrade. 2016;48(1):219-232. doi:10.2298/GENSR1601219D .
Denčić, Srbislav, Depauw, Ron, Momčilović, Vojislava, Aćin, Vladimir, "Comparison of similarity coefficients used for cluster analysis based on SSR markers in sister line wheat cultivars" in Genetika-Belgrade, 48, no. 1 (2016):219-232, https://doi.org/10.2298/GENSR1601219D . .