Key to the list of RAPD loci and abbreviations used
Various columns:
- Slashes ("/") separate information for two RAPDs, which are determined by the same PCR
primer combination and which behave as allelic to one another; thus, they behave like a codominant RAPD.
- ND: not determined.
"Locus name" column. RAPDs whose names end in "R": the polymorphic band is amplified only from inbred strain
C3 DNA. All others: the polymorphic band is amplified only from inbred strain B DNA.
"Primers" column: RAPD primers from Operon Technologies, Inc.; the "OP" prefix has been omitted and a "0"
has been added before single-digit primer number.
"Mg mM" column: Final Mg concentration in PCR reaction -- 2.5 mM unless otherwise specified.
"Same as?" column: The two RAPDs share one PCR primer in common, give polymorphic bands of the same size and map to
the same location. They may represent the same polymorphism, caused by the same DNA sequence difference at the binding site for
the primer shared in common.
"Other notes" column. psMiL: a pseudo-MIC limited RAPD, i.e., a MAC-destined RAPD for which the PCR amplification signal from the
MIC is comparable is comparable in intensity to that from the MAC. This makes it very difficult, if not impossible,
to score MAC assortment tests for these loci.
"Linkage group (lg)" column:
- Chromosome numbers are given according to the revised terminology; L and R suffixes: left and right
arms, respectively.
- UL: Unlinked to any locus. Assigned to its own linkage group, or to another linkage group based
on MAC coassortment.
- UM: Unmapped meiotically; tentatively assigned to linkage group based on MAC coassortment.
"Coassortment group (cag)" column:
(+) or (-): RAPD that shows strong assortment bias to either the band-positive or band-negative allele,
respectively.
Key references to RAPD methods used:
- Application of the RAPD method to mapping the Tetrahymena micronuclear genome:
Brickner J.H., Lynch T.J., Zeilinger D. & Orias E. (1996) Identification, mapping and linkage
analysis of randomly amplified DNA polymorphisms in Tetrahymena thermophila. Genetics, 141: 1315-1325.
- Detailed mapping methods can be found in a chapter by Hamilton and Orias, in the Asai and Forney
in the Tetrahymena volume of Methods in Cell Biology.
Loci:
Other pages:
Go To: