Genomic diversity in date palm (Phoenix dactylifera L.) as revealed by AFLPs in comparison to RAPDs and ISSRs
Date
2005
Journal Title
Journal ISSN
Volume Title
Type
Article
Publisher
Arab J. Biotechnol.
Series Info
Arab J. Biotechnol;Volume: 8 Issue: 1 Pages: 99-114
Doi
Scientific Journal Rankings
Abstract
Fourteen date palm (Phoenix dactylifera L.) accessions collected from different locations in
Egypt representing six Egyptian cultivars: Sakkoty, Bertmoda, Malkaby, Gandila, Fraihy and Siwi
were assayed using 16 AFLP primer combinations. AFLP analysis generated a total of 657
amplicons representing a level of polymorphism of 45.8%. The genetic similarity and relationships
were estimated among the 14 accessions and among the six cultivars according to Dice
coefficient.The AFLP-based dendrograms clustered the genotypes of some cultivars together, i.e.
Fraihy and Gandila. The genotypes of Siwi cultivar were clustered together also, but they exhibited
some degree of intravarietal variation. The other three cultivars (Sakkoty, Bertmoda, and Malkaby)
showed higher degree of intravarietal variation. Moreover, at the intervarietal level, the AFLP
assay separated the oases cultivars i.e., Siwi and Fraihy, from the cultivars from Aswan, i.e.
Sakkoty, Bertmoda, Malkaby and Gandila. AFLP analysis permitted the characterization of each
cultivar by specific unique markers.Data from RAPD’s and ISSR’s, previously obtained on the same
14 accessions were combined with AFLP’s to generate more accurate relationships based on large
and versatile genome coverage. The dendrogram based on the combined data from the different
types of markers (RAPD, ISSR and AFLP) was closest to the AFLP-based dendrogram. To evaluate
the efficiency of the different marker systems, the sum effective number of alleles (SENA), the
average expected heterozygosity for polymorphic markers (Hav(p)), the effective multiplex ratio (E)
and marker index (MI) were calculated. The AFLP exhibited considerably high sum effective
number of alleles (205.7) compared to RAPD and ISSR (45.1 and 17.8, respectively). The average
heterozygosity was also higher in AFLP (0.39) than in RAPD and ISSR (0.36 and 0.35,
respectively). The MI was 117.3 in AFLP while it was 95.9 and 10.4 in RAPD and ISSR,
respectively. Thus, the results indicated that AFLP is more effective in detecting high level of
polymorphism. The correlation coefficient was considerably high between RAPD and ISSR (0.68),
and it was lower between RAPD and AFLP (0.23) than that between AFLP and ISSR (0.34). The
results confirmed that different marker systems differ in the mechanism of detecting polymorphism,
genome coverage and the ease of application. Therefore, they could complement each other to draw
more accurate conclusions.
تم دراسة التباين علاقات القرابة الوراثية بين ١٤ عينة من نخيـل الـبلح المـصري (.L dactylifera Phoenix(
مجمعة من مناطق في مصر تمثل أصناف هم : سكوتي برتمودا ملكابي جنديلة فريحي سيوي ذلـك
باستخدام ١٦ توليفة من بادئات الـ AFLP .
أظهر الـ AFLP ٦٥٧ شظية بنسبة تباين ,٤٥ % تم تقدير العلاقات الوراثية بين الـ ١٤ عينـة الـستة
أصناف بناء على التشابه الوراثي باستخدام معامل Dice . اظهر الدندروجرام الناتج من تقنية الـ AFLP أن التراكيـب
الوراثية التابعة لبعض الأصنا المدروسة كانت مجمعة في مجموعات منفصلة مثل صنفي فريحي جنديلة . كما ظهـرت
التراكيب الوراثية التابعة لصنف سيوي أيضا في مجموعة واحدة إلا أنها أوضحت بعض التبـاين داخـل الـصنف , بينمـا
ظهرت أصناف سكوتي برتمودا ملكابي مستوى أعلى من التباين داخل الصنف , أما على مستوى التباين بين الأصناف
فقد فصل الـ AFLP أصناف الواحات (سيوي فريحي) عن أصناف أسوان (سكوتي برتمودا وملكـابي جنديلـة) .
وقد تم تجميع نتائج التحليلات السابقة من الرابد ISSR للـ ١٤ عينة مع نتائج s’AFLP كبيانات تجميعيـة لإظهـار
علاقات قرابة اكثر دقة تعتمد على تغطية اكبر للجينوم حيث كان الدندروجرام الناتج من الأنواع المختلفـة مـن الواسـمات
الجزيئية (الرابد ISSR AFLP (أكثر تطابقا مع دندروجرام الـ AFLP . كذلك فانه مقارنة كفاءة هـذه التقنيـات
الثلاث في تحليل جينوم النخيل ذلك عن طريق تقدير مجموع العدد الفعال من الأليلات (SENA (حساب متوسط الــ
Heterozygosity الـ ratio Multiplex معامل الواسم (MI (لكل واسم حيـث أظهـرت واسـمات ال AFLP
مجموع عالي للعدد الفعال من الأليلات ,٢٠٥ مقارنة RAPD , ISSR, ) ٤٥, , ١٧ على التوالي) . كذلك أظهرت
. التوالي على, ٣٩ , ,٣٥ , ,٣٦ heterozygosity نسبة AFLP الـ ISSR , RAPD الـ واسمات
قد كانت قيمة الـ MI, ١١٧ في الـ AFLP بينما كانت ,٩٥, , ١٠ في لرابد الـ ISSR على التوالي . مـن
كل هذه النتائج اتضح أن AFLP اكثر كفاءة في تحديد مستوى التباين كانت قيمة معامل الارتباط بين الــ RAPD
ISSR هي ٦٨ ,بين الـ RAPD AFLP هي ٢٣ ,بينما كانت هذه القيمة للـ AFLP ISSR ٣٤ . ,
قد أكد النتائج أن الأنظمة المختلفة للواسمات الجزيئية تختلف في ميكانيكية اكتشاف التباين تغطية الجينـوم سـهولة
تطبيقها لذلك فهي تعتبر مكملة لبعضها يمكن أن تكون ذات فائدة كبيرة في تحديد الطرز الوراثية حفظ الأصول الوراثية
في برامج التربية
Description
MSA Google Scholar
Keywords
University of Date palm, AFLP, Genotype unique markers, SENA, Expected heterozygosity for polymorphic loci (Hav (P)), Marker index (MI)
Citation
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