Saran - Analysis of Genetic variability of yellow chatfish (Hemibarus nemurus) by using PCR-RFL

Untuk memastikan keragaman genetik mtDNA yang rendah pada populasi Serayu, maka perlu dilakukan analisis keragaman mtDNA dengan melakukan analisis keragaman DNA pada daerah selain D-loop mtDNA.

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Lampiran 1 Lokasi penyamplingan populasi ikan baung (Hemibagrus nemurus)

no Populasi Provinsi Lokasi

1 Cirata Jawa Barat Waduk Cirata

2 Serayu Jawa Tengah Sungai Serayu perbatsan dengan Cilacap

3 Jambi Jambi Hasil domestikasi BBAT Jambi

4 Bogor Jawa Barat Sungai Cisadane perbatasan dengan

Lampiran 2 Hasil analisis menggunakan software TFPGA untuk nilai Variasi genetik empat populasi ikan baung berdasarkan D-loop mtDNA yang dipotong dengan 4 enzim yaitu MboI, HaeIII,AluI dan RsaI. 1). Cirata; 2). Serayu; 3).Jambi; 4). Bogor.

Data set contains genotypes of individuals sampled from populations. Organism Type: Diploid

Marker Type: Codominant

DESCRIPTIVE STATISTICS

RESULTS FOR EACH POPULATION.

POPULATION 1

Locus 1 # obs. at locus= 10

allele: # obs: allele freq: # hets: het freq: 1 12 0.6000 0.0000 0.0000 2 8 0.4000 0.0000 0.0000 3 0 0.0000 0.0000 0.0000 4 0 0.0000 0.0000 0.0000 5 0 0.0000 0.0000 0.0000 6 0 0.0000 0.0000 0.0000 7 0 0.0000 0.0000 0.0000 Heterozygosity: 0.4800 Heterozygosity (unbiased): 0.5053 Heterozygosity (direct count): 0.0000

--- Results over all loci

Ave. sample size: 10.0000 Ave. heterozygosity: 0.4800

Ave. heterozygosity (unbiased): 0.5053 Ave. heterozygosity (direct count): 0.0000 % polymorphic loci (no criterion): 100.0000 % polymorphic loci (99% criterion): 100.0000 % polymorphic loci (95% criterion): 100.0000 ---

POPULATION 2

Locus 1 # obs. at locus= 10

allele: # obs: allele freq: # hets: het freq: 1 0 0.0000 0.0000 0.0000 2 0 0.0000 0.0000 0.0000 3 20 1.0000 0.0000 0.0000 4 0 0.0000 0.0000 0.0000 5 0 0.0000 0.0000 0.0000 6 0 0.0000 0.0000 0.0000 7 0 0.0000 0.0000 0.0000 Heterozygosity: 0.0000 Heterozygosity (unbiased): 0.0000 Heterozygosity (direct count): 0.0000

--- Results over all loci

Ave. sample size: 10.0000 Ave. heterozygosity: 0.0000

Ave. heterozygosity (unbiased): 0.0000 Ave. heterozygosity (direct count): 0.0000 % polymorphic loci (no criterion): 0.0000 % polymorphic loci (99% criterion): 0.0000 % polymorphic loci (95% criterion): 0.0000 ---

POPULATION 3

Locus 1 # obs. at locus= 10

allele: # obs: allele freq: # hets: het freq: 1 0 0.0000 0.0000 0.0000 2 0 0.0000 0.0000 0.0000 3 0 0.0000 0.0000 0.0000 4 12 0.6000 0.0000 0.0000 5 4 0.2000 0.0000 0.0000 6 2 0.1000 0.0000 0.0000 7 2 0.1000 0.0000 0.0000 Heterozygosity: 0.5800 Heterozygosity (unbiased): 0.6105 Heterozygosity (direct count): 0.0000

Results over all loci

Ave. sample size: 10.0000 Ave. heterozygosity: 0.5800

Ave. heterozygosity (unbiased): 0.6105 Ave. heterozygosity (direct count): 0.0000 % polymorphic loci (no criterion): 100.0000 % polymorphic loci (99% criterion): 100.0000 % polymorphic loci (95% criterion): 100.0000 ---

POPULATION 4

Locus 1 # obs. at locus= 10

allele: # obs: allele freq: # hets: het freq: 1 10 0.5000 0.0000 0.0000 2 10 0.5000 0.0000 0.0000 3 0 0.0000 0.0000 0.0000 4 0 0.0000 0.0000 0.0000 5 0 0.0000 0.0000 0.0000 6 0 0.0000 0.0000 0.0000 7 0 0.0000 0.0000 0.0000 Heterozygosity: 0.5000 Heterozygosity (unbiased): 0.5263 Heterozygosity (direct count): 0.0000

--- Results over all loci

Ave. sample size: 10.0000 Ave. heterozygosity: 0.5000

Ave. heterozygosity (unbiased): 0.5263 Ave. heterozygosity (direct count): 0.0000 % polymorphic loci (no criterion): 100.0000 % polymorphic loci (99% criterion): 100.0000 % polymorphic loci (95% criterion): 100.0000

Lampiran 3Hasil analisis menggunakan software TFPGA untuk nilai jarak genetikempat populasi ikan baung berdasarkan D-loop mtDNA yang dipotong dengan 4 enzim yaitu MboI, HaeIII,AluI dan RsaI. 1). Cirata; 2). Serayu; 3).Jambi; 4). Bogor.

Data set contains genotypes of individuals sampled from populations. Organism Type: Diploid

Marker Type: Codominant

GENETIC DISTANCES

Roger's (1972) distance and Wright's (1978) modification.

Populations Roger's Wright's compared distance modification 1 vs. 2 0.8718 0.8718 1 vs. 3 0.6856 0.6856 1 vs. 4 0.1000 0.1000 2 vs. 3 0.8426 0.8426 2 vs. 4 0.8660 0.8660 3 vs. 4 0.6782 0.6782

Lampiran 4Hasil analisis menggunakan software TFPGA untuk nilai uji Fst berpasanganempat populasi ikan baung berdasarkan mtDNA yang dipotong dengan 4 enzim yaitu MboI, HaeIII,AluI dan RsaI. 1). Cirata; 2). Serayu; 3).Jambi; 4). Bogor.

Data set contains genotypes of individuals sampled from populations. Organism Type: Diploid

Marker Type: Codominant

Exact tests for population differentiation (Raymond and Rousset 1995)

# of dememorization steps: 1000 # of batches: 10

# of permutations per batch: 2000

Pairwise analysis of all populations

Groups compared: 1 vs. 2