ASSIGNMENT 1 OF MOLECULAR ANALYSIS

MUHAMMAD YUNUS

P051140261

SEKOLAH PASCASARJANA

INSTITUT PERTANIAN BOGOR

BOGOR

2015

 

NTSys Ouput of Data 1 and Data 2

Figure 1 Phylogenetic tree of data 1 using SAHN analysis

Figure 2 Phylogenetic tree of data 1 using NJOIN analysis

Coefficient

0.60 0.69 0.77 0.85 0.94

 

SCa12

SCa6

ICCRI4

ICCRI3

ICS60

DRC16

ICCRI1

ICCRI2

DR38

TSH858

ICS13

RCC72

RCC70

RCC71

DR2

PA300

PA303

UF667

DR1

 NIC4

 NIC7

GC7

Coefficient

2.00 4.25 6.50 8.75 11.00

 

SCa12

GC7

RCC70

RCC71

ICS13

DR1

 NIC4

 NIC7

RCC72

DR38

TSH858

ICCRI1

ICCRI2

ICCRI3

ICS60

DR2

DRC16

PA300

PA303

UF667

ICCRI4

SCa6

 

 Figure 3 Phylogenetic tree of data 2 using SAHN analysis

Figure 4 Phylogenetic tree of data 2 using NJOIN analysis

Coefficient

0.73 0.79 0.85 0.91 0.98

 

PA300

PA303

DR1

DR2

ICCRI2

DRC15

DRC16

DR38

 NIC4

 NIC7

ICS13

GC7

UIT1

RCC70

RCC71

RCC72

ICCRI1

ICCRI3

ICCRI4

RCC78

KEE2

TSH908

Sca6

Sca12

Sca89

ICS60

TSH858

UF667

 NW6261

Coefficient

2.00 4.50 7.00 9.50 12.00

 

PA300

RCC72

RCC78

KEE2

TSH908

RCC70

RCC71

DR2

ICCRI2

DRC16

PA303

DR38

ICCRI1

ICCRI3

ICCRI4

Sca6

Sca12

Sca89

UF667

 NW6261

ICS60

TSH858

 NIC4

 NIC7

ICS13

GC7

UIT1

DR1

DRC15

 

(1) Data1 analysis: Morphological Data

Q1. Based on the output of SAHN Clustering Analysis, what accessions are the closest (the most

related) accessions?

A1. The closest accession are RCC70 with RCC71

Q2. Based on the output of SAHN Clustering Analysis, what accessions are the most distantly

related accessions?

A2. The most distantly related accessions are GC7 with SCa12

Q3. Based on the output of NJOIN Clustering Analysis, set by using OTU no. 2 (SCa6) as

OUTGROUP, what accessions are the closest (the most related) accessions?

A3. The most related accessions are NIC4 with NIC7

Q4. Based on the output of NJOIN Clustering Analysis, set by using OTU no. 2 (SCa6) as

OUTGROUP, what accessions are the most distantly related accessions?

A4. The most distantly reated accessions are SCa6 with SCa12

(2) Data2 analysis: Molecular Marker Data

Q1. Based on the output of SAHN Clustering Analysis, what accessions are the closest (the most

related) accessions?

A1. The closest accession are SCa12 with SCa89 

Q2. Based on the output of SAHN Clustering Analysis, what accessions are the most distantly

related accessions?

A2. The most distantly related accessions are NW6261 with PA300 

Q3. Based on the output of NJOIN Clustering Analysis, set by using OTU no. 10 (DRC15) as

OUTGROUP, what accessions are the closest (the most related) accessions?

A3. The most related accessions are SCa12 with SCa89

Q4. Based on the output of NJOIN Clustering Analysis, set by using OTU no. 10 (DRC15) as

OUTGROUP, what accessions are the most distantly related accessions?

A4. The most distantly reated accessions are DRC15 with PA300 

(3) Based on results of SAHN and NJOIN analysis of Data1:

Q1. Is the answer for Q1 and Q3 the same? (Just answer: YES or NO)

A1. NO

Q2. Is the answer for Q2 and Q4 the same? (Just answer: YES or NO)

A2. NO

Based on results of SAHN and NJOIN analysis of Data2:

Q3. Is the answer for Q1 and Q3 the same? (Just answer: YES or NO)

A3. YES

Q4. Is the answer for Q2 and Q4 the same? (Just answer: YES or NO)

A4. NO

(4) Based on results of Data1 (Morphological Data) vs. Data2 (Molecular Marker Data)

Q1. Is the answer for Step (1) Q1 and Step (2) Q1 the same? (Just answer: YES or NO)

A1. NO

Q2. Is the answer for Step (1) Q2 and Step (2) Q2 the same? (Just answer: YES or NO)

A2. NO

Q3. Is the answer for Step (1) Q3 and Step (2) Q3 the same? (Just answer: YES or NO)

A3. NO

Q4. Is the answer for Step (1) Q4 and Step (2) Q4 the same? (Just answer: YES or NO)

A4. NO