Subtypes of the subfamily are: V3 – Vibrational frequency; p – Proteins. The subtypes that Nachman was able to classify are: Euplotes (cephalopods with a single nerve cell per nerve), Euploidia (cephalopods with at least two or three nerve cells per nerve) and Xenopus (cephalopods with more than three nerve cells). A list of the subtypes is shown at the end of this article. The V3 subtype is most common in cephalopods. There are two subspecies: A. pachtermatarius and A. pachteronotus.
The subclasses that Nachman made were derived from a study of amino acid sequences in the transcripts of the genes involved in the production and secretion of neurotransmitters. He used a technique called “genomic sequence paralogomic fingerprinting.” It allowed him to map the gene sequences and then determined the frequency of amino acids in transcript transcripts that were translated into neurotransmitters.
To determine which of the subsubclasses are included in each subfamily, Nachman has used data from a variety of sources. These include molecular biology, morphological and biochemical data, and morphologic and biochemical data from comparative studies in other cephalopods.
The classification Nachman uses is a very simplified classification. For example, one subfamily contains a few dozen species in five families. However, the classification is not a strict family tree, but a list that shows the relationships of the species within each family. For example, the Acanthamoeba species are part of the Acanthamoeba subfamily. Acanthamoeba belongs to a family called Thermotidae, while Acanthamoeba atlantica belongs to a subfamily called Thermotoriidae.
The classification was built in a similar manner to Nachman’s classification. He used the V5 amino acid coding region and the crf numbering system. Each subtype of the subfamily is assigned a unique crf numbering. This can designation is based on the amino acid sequence that is used to define the subtype. This can designation also includes both the amino acid sequence that is used in the transcript and the crf numbering sequence for the subunit that is expressed.
In addition, the classification is based on a card numbering system that involves the assignment of an alpha number to each card number, rather than an alpha or beta number. This can designation assigns the number of amino acids at each position of the transcript. Each amino acid is assigned a different card number. The crf designation is used to help Nachman determine the position of the crf amino acid in the transcript and the position of the card number in the transcript.
As the crf classification is a tree, the crf notation is used to show the relationship of two or more of numbers to a crf designation. Nachman’s classification is the most widely used, but the classification that I use is similar and may be easier to understand. The crf notation is used in my textbook, Nautilus Biology: Transcription and Translation, and it is important that students be able to read it correctly before reading transcript information from the transcript.
When the crf notation is used, all amino acid sequences are assigned a unique card number and the crf numbering is based on the amino acid sequence. The first number is the amino acid number that are first in the transcript, and the next number is the amino acid number that are next in the transcript. After this, the sequence is repeated with the amino acid number of the transcript following the card number. The sequence is then interpreted as the card number for the corresponding amino acid sequence of the transcript after the card number is multiplied by 11.
Amino acids can be divided into the following sequence, and the sequence is repeated for each of the following amino acids: TAA, GAA, ATC, CCG, CGG, ACG, and GTC. The sequence that repeats is used as the crf number for each amino acid. The sequence of the amino acids is repeated for each crf number following the first crf number, which is repeated for the next amino acid in the sequence.
This process is used to indicate the amino acids in the transcript. After the amino acid sequence has been repeated for the card number, Nachman and I divide the sequence into the following sequence, which is used to assign the crf designation. The crf designation for the sequence is then the sequence of the transcript that has the highest amino acid sequence number.