All Exams Test series for 1 year @ ₹349 only
Question

Given below are the approximate lengths of DNA fragments obtained on agarose gel electrophoresis following restriction digestion of a 3kb circular plasmid with different restriction
enzymes:

BamHI : 0.5kb, 2.5kb

HincII : 3 kb

EcoRI : 3 kb

EcoRI + BamHI : 0.5kb, 1kb, 1.5kb

EcoRI + HincII : 3kb, 1.7kb

BamHI + HincII : 0.2kb, 0.3kb, 2.5kb

Based on the above information, which one of the following statements is INCORRECT? 

The correct answer is

The distance between EcoRI and BamHI sites is less than that between the HincII site and BamHI sites.

The problem asks us to analyze the fragment sizes obtained from restriction enzyme digestion of a 3kb circular plasmid to determine the arrangement of restriction sites and identify an incorrect statement among the given options.

A circular plasmid of 3kb is digested with different restriction enzymes and combinations, yielding the following fragments:

Enzyme(s) Fragments (kb) Total Length (kb) Number of Fragments Number of Cut Sites
BamHI 0.5, 2.5 3.0 2 2
HincII 3 3.0 1 1
EcoRI 3 3.0 1 1
EcoRI + BamHI 0.5, 1, 1.5 3.0 3 3 (1+2)
EcoRI + HincII 3, 1.7 4.7 (Typo in input) 2 2 (1+1)
BamHI + HincII 0.2, 0.3, 2.5 3.0 3 3 (2+1)

From the single digestions:

  • BamHI gives 2 fragments, so it has 2 recognition sites.
  • HincII gives 1 fragment, so it has 1 recognition site.
  • EcoRI gives 1 fragment, so it has 1 recognition site.

This confirms the first part of statement 1.

The combined digests help in mapping the relative positions of the sites.

Mapping Restriction Sites

Let's deduce the arrangement of the sites based on the fragment sizes from double digestions. We'll assume the EcoRI + HincII fragment sizes are 1.3kb and 1.7kb, summing to 3kb, as the input 3kb, 1.7kb seems to be a typo for a 3kb plasmid digestion resulting in two fragments from two single cutters.

  • BamHI (B1, B2): Two sites, 0.5kb and 2.5kb apart.
  • EcoRI (E) and HincII (H): One site each.

Consider the BamHI + HincII digestion yielding 0.2kb, 0.3kb, and 2.5kb fragments. Since BamHI cuts twice and HincII once, we expect three fragments. The original BamHI sites are 0.5kb and 2.5kb apart. If HincII cuts within the 0.5kb segment, it splits it into two smaller fragments, and the 2.5kb segment remains intact. The fragments would be the 2.5kb segment and two fragments summing to 0.5kb. This matches the observed fragments: 2.5kb and (0.2kb + 0.3kb) = 0.5kb. This means the HincII site (H) is located within the 0.5kb segment between the two BamHI sites (B1 and B2), 0.2kb from one site and 0.3kb from the other.

Possible arrangement based on BamHI + HincII:

B1 ---0.2kb--- H ---0.3kb--- B2 ---2.5kb--- B1 (Circular plasmid)

Consider the EcoRI + BamHI digestion yielding 0.5kb, 1kb, and 1.5kb fragments. BamHI cuts twice, EcoRI once, giving three fragments. The BamHI sites are 0.5kb and 2.5kb apart. The 0.5kb fragment from the double digest matches one of the original BamHI fragments. This means the EcoRI site is not located within this 0.5kb segment. It must be located within the 2.5kb segment, splitting it into two pieces. The sizes of these two pieces must be 1kb and 1.5kb, since the fragments observed are 0.5kb, 1kb, and 1.5kb, and 1kb + 1.5kb = 2.5kb.

So, the EcoRI site (E) is located within the 2.5kb segment between B2 and B1 (along the longer path), splitting it into 1kb and 1.5kb pieces. Combining this with the B+H map:

Let's place B1 at position 0 on the 3kb circle.

  • From B+H: H is at 0.2kb, B2 is at 0.5kb. The segment from B2 back to B1 is 2.5kb.
  • From E+B: E is in the 2.5kb segment between B2 and B1. It splits this 2.5kb into 1kb and 1.5kb. This means E is either 1kb from B2 (along the 2.5kb path) or 1.5kb from B2 (along the 2.5kb path).

Let's test placement of E at 1kb from B2 along the 2.5kb path. B2 is at 0.5kb. Moving 1kb along the larger segment brings us to 0.5 + 1.0 = 1.5kb from B1 (position 0). So E is at 1.5kb.

Map arrangement:

B1(0kb) --0.2kb-- H(0.2kb) --0.3kb-- B2(0.5kb) --1.0kb-- E(1.5kb) --1.5kb-- B1(3.0kb)

Let's verify this map with all digestions (using assumed 1.3kb/1.7kb for E+H):

  • BamHI (B1, B2): Distances are 0.5kb (0.2+0.3) and 2.5kb (1.0+1.5). Matches (0.5kb, 2.5kb).
  • HincII (H): Single cut, 3kb fragment. Matches.
  • EcoRI (E): Single cut, 3kb fragment. Matches.
  • EcoRI + BamHI (B1, B2, E): Fragments between adjacent sites: B1-H-B2 is 0.5kb, B2-E is 1.0kb, E-B1 is 1.5kb. Matches (0.5kb, 1.0kb, 1.5kb).
  • BamHI + HincII (B1, B2, H): Fragments between adjacent sites: B1-H is 0.2kb, H-B2 is 0.3kb, B2-E-B1 is 1.0+1.5 = 2.5kb. Matches (0.2kb, 0.3kb, 2.5kb).
  • EcoRI + HincII (E, H): Fragments between adjacent sites: H-B2-E is 0.3+1.0 = 1.3kb, E-B1-H is 1.5+0.2 = 1.7kb. Matches (1.3kb, 1.7kb).

The map B1(0) --0.2-- H(0.2) --0.3-- B2(0.5) --1.0-- E(1.5) --1.5-- B1(3.0) is consistent with all data (assuming the E+H correction).

Evaluating Statements

Let's check each statement based on our map:

1. HincII and EcoRI have a single recognition site each in the plasmid.

  • Single digests showed 3kb fragments for both HincII and EcoRI, indicating one cut site each.
  • This statement is CORRECT.

2. HincII site is located between two BamHI sites.

  • The map shows HincII (H) at position 0.2kb, while BamHI sites (B1 and B2) are at 0kb and 0.5kb (along the short 0.5kb path). H is indeed between B1 and B2 along the 0.5kb segment.
  • This statement is CORRECT.

3. The distance between EcoRI and BamHI sites is less than that between the HincII site and BamHI sites.

  • Distances between EcoRI (E) and BamHI sites (B1, B2):
    • E to B1: 1.5kb
    • E to B2: 1.0kb
    • The distances are 1.0kb and 1.5kb.
  • Distances between HincII (H) and BamHI sites (B1, B2):
    • H to B1: 0.2kb
    • H to B2: 0.3kb
    • The distances are 0.2kb and 0.3kb.
  • The statement claims the distances {1.0kb, 1.5kb} are "less than" {0.2kb, 0.3kb}. This is false. For example, the shortest E-B distance (1.0kb) is greater than the longest H-B distance (0.3kb).
  • This statement is INCORRECT.

4. HincII is located closer to one BamHI site than the other.

  • HincII (H) is 0.2kb from B1 and 0.3kb from B2 (along the shortest path). Since 0.2kb < 0.3kb, H is closer to B1 than B2.
  • This statement is CORRECT.

Based on the analysis, the incorrect statement is number 3.

Was this answer helpful?

Important Questions from Molecular Biology Techniques

  1. Which one of the following does NOT use RNA-sequencing?

  2. Which one of the following statements related to molecular cloning procedures is INCORRECT?

  3. Amongst the following, which one is the most appropriate strategy to sequence and assemble highly repeated regions of a genome?

  4. Given below are statements related to various molecular techniques

    A. During molecular cloning of DNA fragments, a vector and insert molecule digested with two different enzymes can never be ligated with each other.

    B. Only 3' → 5' exonucleases and not 5' → 3' exonucleases can be used for digesting nucleic acids to generate blunt-ended fragments for cloning.

    C. In Sanger's dideoxy sequencing method, each reaction consists of a mixture of three dNTPs and one ddNTP.

    D. Self-ligation of a vector with compatible ends can be prevented by treatment with alkaline phosphatase.

    Which one of the following options represents a combination of correct statements?

  5. Given below are four DNA sequences and a set of forward and reverse primers for PCR amplification.

    SequencePrimes
    A 5' ACAATCGT.....ACTAGTAC-3'FP: 5'-TGTTAG-3'
    RP: 5'-TAGTAC-3'
    B5' AGTCTTAG.....ATGCCAGT - 3'FP: 5'-AAGACT-3'
    RP: 5'-ACTGGC-3'
    C5' CTTGACTA.....GTACAGTCA-3'FP: 5'-CTTGAC-3'
    RP: 5'-TGACTG-3'
    DD 5' GATCTAGC.....TCAAGCAGAC-3'FP: 5'-GATCTA-3'
    RP: 5'-CAGACG-3'
    In the absence of any other factors such as (but not restricted to) Tm, length, percent GC, etc., which one of the above template-primers combinations would produce an amplified fragment?
Need Expert Advice?

Start Your Preparation with Prepp Mobile App

Download the app from Google Play & App Store
Download the app from Google Play & App Store
Prepp Mobile App