In Appendix I at the end of this test you will find a DNA strand sequence...
In Appendix I at the end of this test you will find a DNA strand sequence from the 16S rDNA gene of an unknown bacterium. Perform a BLAST search in an appropriate database site to find the closest match and most likely identity of the organism. Record the phylum, class, and species information, as well as the match/identity percentage for your search. Percent Match (Identity):
Appendix I:
Unknown Bacterial Isolate Associated with a Sea Urchin Digestive System
>114-PM GGGGTGTTTTATCACCTAGTTTCAGTCTTACCCTAGGCAGCTCCTTGCGGTCAGCGACTTC AGGCACCCCCAGCTTCCATGGCTTGACGGGCGGTGTGTACAAGGCCCGGGAACGTATTCA CCGGATCATGGCTGATATCCGATTACTAGCGATTCCAGCTTCACGGAGTCGAGTTGCAGA CTCCGATCCGAACTGTGACCGGTTTTATAGATTCGCTCCTGGTCACCCAGTGGCTGCTCTC TGTACCGGCCATTGTAGCACGTGTGTAGCCCAAGGCGTAAGGGCCGTGATGATTTGACGT CATCCCCACCTTCCTCACAGTTTGCACTGGCAGTCTTGTTAGAGTTCCCGACATGACTCGC TGGCAACTAACAACAGGGGTTGCGCTCGTTATAGGACTTAACCTGACACCTCACGGCACG AGCTGACGACAACCATGCAGCACCTTGTAAATTGTCTTGCGAAAGATCTGTTTCCAAACC GGTCAATCTACATTTAAGCCTTGGTAAGGTTCCTCGCGTATCATCGAATTAAACCACATGC TCCACCGCTTGTGCGGGCCCCCGTCAATTCCTTTGAGTTTCATTCTTGCGAACGTACTCCCC AGGTGGGATACTTATCACTTTCGCTTAGCCACTGAGATTGCTCCCAACAGCTAGTATCCAT CGTTTACGGCGTGGACTACCAGGGTATCTAATCCTGTTCGCTACCCACGCTTTCGTCCATC AGCGTCAATCCATTAGTAGTAACCTGGCTTTCGCAATTGGTATTCCATGTAAATCTCTAAG CATTTCACCGCTTCACCTACATATTCTAGTTACCTTCCTAAATAATTCCAAGTTCAGCCAGT AATCAATGGGCCCGTTCCAACCGGTTGAAGCGATGGGGCTTTTCACCCACTGGACTTTACT AAAACCGGCCTACGGGACCCCTTTTAAAAACCCAATGGATTCCCCGGAATTAACGGCTTT GGGAATCCTTCCGTAATTAACCCGCGGCTTGGGTGCTTGGGCACGGGAAAGTTAGGCCCG ATCCCTTTATTTTTCTTTACGGAATAACCCGTCCAAAAAGCTTTCCTCCAACACAAAAAAC CCGTTTGAGATTGGTTCTTCTCCCCCGGTACCAAAAAA
Homework Answers
The given sequence,
>114-PM
GGGGTGTTTTATCACCTAGTTTCAGTCTTACCCTAGGCAGCTCCTTGCGGTCAGCGACTTC
AGGCACCCCCAGCTTCCATGGCTTGACGGGCGGTGTGTACAAGGCCCGGGAACGTATTCA
CCGGATCATGGCTGATATCCGATTACTAGCGATTCCAGCTTCACGGAGTCGAGTTGCAGA
CTCCGATCCGAACTGTGACCGGTTTTATAGATTCGCTCCTGGTCACCCAGTGGCTGCTCTC
TGTACCGGCCATTGTAGCACGTGTGTAGCCCAAGGCGTAAGGGCCGTGATGATTTGACGT
CATCCCCACCTTCCTCACAGTTTGCACTGGCAGTCTTGTTAGAGTTCCCGACATGACTCGC
TGGCAACTAACAACAGGGGTTGCGCTCGTTATAGGACTTAACCTGACACCTCACGGCACG
AGCTGACGACAACCATGCAGCACCTTGTAAATTGTCTTGCGAAAGATCTGTTTCCAAACC
GGTCAATCTACATTTAAGCCTTGGTAAGGTTCCTCGCGTATCATCGAATTAAACCACATGC
TCCACCGCTTGTGCGGGCCCCCGTCAATTCCTTTGAGTTTCATTCTTGCGAACGTACTCCCC
AGGTGGGATACTTATCACTTTCGCTTAGCCACTGAGATTGCTCCCAACAGCTAGTATCCAT
CGTTTACGGCGTGGACTACCAGGGTATCTAATCCTGTTCGCTACCCACGCTTTCGTCCATC
AGCGTCAATCCATTAGTAGTAACCTGGCTTTCGCAATTGGTATTCCATGTAAATCTCTAAG
CATTTCACCGCTTCACCTACATATTCTAGTTACCTTCCTAAATAATTCCAAGTTCAGCCAGT
AATCAATGGGCCCGTTCCAACCGGTTGAAGCGATGGGGCTTTTCACCCACTGGACTTTACT
AAAACCGGCCTACGGGACCCCTTTTAAAAACCCAATGGATTCCCCGGAATTAACGGCTTT
GGGAATCCTTCCGTAATTAACCCGCGGCTTGGGTGCTTGGGCACGGGAAAGTTAGGCCCG
ATCCCTTTATTTTTCTTTACGGAATAACCCGTCCAAAAAGCTTTCCTCCAACACAAAAAAC
CCGTTTGAGATTGGTTCTTCTCCCCCGGTACCAAAAAA
It is used as a query sequence for the BLASTn search in the NCBI
website with default parameters. The following results were
obtained.
See the image
Organism: Flavibacterium
Gene = 16S rRNA
Domain: Bacteria
Phylum: Bacteroidetes
Class: Flavobacteriia
Order: Flavobacteriales
Family: Flavobacteriaceae
Genus: Flavobacterium
Species: acidificum
Add Answer to:
In Appendix I at the end of this test you will find a DNA strand
sequence...
x Assignment 1 - Database.pdf ... Learn how to access and use NCBI databases Question 1:...
x Assignment 1 - Database.pdf ... Learn how to access and use NCBI databases Question 1: Search Taxonomy database for: 1) Homo sapiens, 2) Heterodoxus macropus, 3) E. coli. a. What is the common name of the species? b. How many nucleotide or protein sequence records do you find (show your search results in cropped windows)? Question 2: Use the name "plague thrips" to search the Nucleotide database. a. What is the scientific name of the plague thrips? b. How...
11 Department of Biological Sciences BIOCHEMISTRY Test 2.2018 H. Nucleic Acid, Sequencing of DNA: Amino Acids...
11 Department of Biological Sciences BIOCHEMISTRY Test 2.2018 H. Nucleic Acid, Sequencing of DNA: Amino Acids Hydrolysis of salt Laboratory buffers, Polyprotie acids QUESTIONS 1. The DNA strand complementary to the strand 3-GTAGCGTAT-Y' would have the sequence a SLTACOCATAT-3 b.3.CATOXICATA-S c. 3-ATGCGTATA-S" ATATGCGTAS 2. When cytosine is treated with bisulfite, the amino group is replaced with a carbonyl group. Identify the resulting base a. adenine b. guanine c uracil d. thyminee. typoxanthine 3. How many amino acids would be in...
x Assignment 1 - Database.pdf ... Learn how to access and use NCBI databases Question 1: Search Taxonomy database for: 1) Homo sapiens, 2) Heterodoxus macropus, 3) E. coli. a. What is the common name of the species? b. How many nucleotide or protein sequence records do you find (show your search results in cropped windows)? Question 2: Use the name "plague thrips" to search the Nucleotide database. a. What is the scientific name of the plague thrips? b. How...
11 Department of Biological Sciences BIOCHEMISTRY Test 2.2018 H. Nucleic Acid, Sequencing of DNA: Amino Acids Hydrolysis of salt Laboratory buffers, Polyprotie acids QUESTIONS 1. The DNA strand complementary to the strand 3-GTAGCGTAT-Y' would have the sequence a SLTACOCATAT-3 b.3.CATOXICATA-S c. 3-ATGCGTATA-S" ATATGCGTAS 2. When cytosine is treated with bisulfite, the amino group is replaced with a carbonyl group. Identify the resulting base a. adenine b. guanine c uracil d. thyminee. typoxanthine 3. How many amino acids would be in...
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