Compositions and methods for identifying and distinguishing orthosomycin biosynthetic loci

A method of identifying an everninomicin-type orthosomycin biosynthetic gene duster comprising providing a sample containing DNA, and detecting the presence of a nucleic acid sequence coding for a polypeptide from at least one of the of the groups consisting of:

• r. SEQ ID NO:
• 209, SEQ ID NO:
• 211 and polypeptides having at least 65% homology to a polypeptide of SEQ ID NO:
• 209 or SEQ ID NO:
• 211;
• s. SEQ ID NO:
• 213, SEQ ID NO:
• 215 and polypeptides having at least 65% homology to a polypeptide of SEQ ID NO:
• 213 or SEQ ID NO:
• 215;
• t. SEQ ID NO:
• 217, SEQ ID NO:
• 219 and polypeptides having at least 65% homology to a polypeptide of SEQ ID NO:
• 217 or SEQ ID NO:
• 219;
• u. SEQ ID NO:
• 221, SEQ ID NO:
• 223 and polypeptides having at least 65% homology to a polypeptide of SEQ ID NO:
• 221 or SEQ ID NO:
• 223;
• v. SEQ ID NO:
• 225, SEQ ID NO:
• 227 and polypeptides having at least 65% homology to a polypeptide of SEQ ID NO:
• 225 or SEQ ID NO:
• 227
• w. SEQ ID NO:
• 229, SEQ ID NO:
• 231 and polypeptides having at least 65% homology to a polypeptide of SEQ ID NO:
• 229 or SEQ ID NO:
• 231;
• x. SEQ ID NO:
• 233, SEQ ID NO:
• 235 and polypeptides having at least 65% homology to a polypeptide of SEQ ID NO:
• 233 or SEQ ID NO:
• 235;
• y. SEQ ID NO:
• 237, SEQ ID NO:
• 239 and polypeptides having at least 65% homology to a polypeptide of SEQ ID NO:
• 237 or SEQ ID NO:
• 239;
• and
• z. SEQ ID NO:
• 241, SEQ ID NO:
• 243 and polypeptides having at least 65% homology to a polypeptide of SEQ ID NO:
• 241 or SEQ ID NO:
• 243.

A method of identifying an avilamycin-type orthosomycin biosynthetic gene cluster comprising providing a sample containing DNA, and detecting the presence of a nucleic acid sequence coding for a polypeptide from at least one of the groups consisting of

• aa. SEQ ID NO:
• 245, Genbank accession no AAG32068 and polypeptides having at least 65% homology to a polypeptide of SEQ ID NO:
• 245 or Genbank accession no. AAG32068;
• bb. SEQ ID NO:
• 247, Genbank accession no. AAK3183, and polypeptides having at least 65% homology to a polypeptide of SEQ ID NO:
• 247 or Genbank accession no. AAK83183;
• cc. SEQ ID NO:
• 249, accession no. AAG32069, and polypeptides having at least 65% homology to a polypeptide of SEQ ID NO:
• 249 or Genbank accession no. AA32069;
• dd. SEQ ID NO:
• 251, Genbank accession no AAK83172, and polypeptides having at least 65% homology to a polypeptide of SEQ ID NO:
• 251 or Genbank accession no. AAK83172;
• ee. SEQ ID NO:
• 253, Genbank accession no. AAK83171 and polypeptides having at least 65% homology to a polypeptide of SEQ ID NO:
• 253 or Genbank accession no. AAK83171;
• and
• ff. SEQ ID NO:
• 255, Genbank accession no. AAK83175, and polypeptides having at least 65% homology to a polypeptide of SEQ ID NO:
• 255 or Genbank accession no. AAK83175.

A computer readable medium having stored thereon a sequence selected from the group consisting of:

• a. SEQ ID NOS:
• 52, 54, 56, 68, 60, 62, 64, 66, 68, 70, 72, 74, 100, 102, 104, 106, 108, 110, 112, 114, 116, 124, 126, 128, 130, 132, 154, 156, 158, 160, 162, 164, 166, 168, 170, 172, 174, 176, 178, 180, 194, 196, 198, 200, 202, 204, 206, 208;
• b. fragments of SEQ ID NOS:
• 52, 54, 56, 58, 60, 62, 64, 66, 68, 70, 72, 74, 100, 102, 104, 106, 108, 110, 112, 114, 116, 124, 126, 128, 130, 132, 154, 156, 158, 160, 162, 164, 166, 168, 170, 172, 174, 176, 178, 180, 194, 196, 198, 200, 202, 204, 206, 208 comprising at least 10 consecutive nucleotides of SEQ ID NOS:
• 52, 54, 56, 58, 60, 62, 64, 66, 68, 70, 72, 74, 100, 102, 104, 106, 108, 110, 112, 114, 116, 124, 126, 128, 130, 132, 154, 156, 158, 160, 162, 164, 166, 168, 170, 172, 174, 176, 178, 180, 194, 196, 198, 200, 202, 204, 206, 208;
• c. nucleodde sequences at least 70% identical to SEQ ID NOS:
• 52, 54, 56, 58, 60, 62, 64, 66, 68, 70, 72, 74, 100, 102, 104, 106, 108, 110, 112, 114, 116, 124, 126, 128, 130, 132, 154, 156, 158, 160, 162, 164, 166, 168, 170, 172, 174, 176, 178, 180, 194, 196, 198, 200, 202, 204, 206, 208, or at least 70% identical to fragments of SEQ ID NOS:
• 52, 54, 56, 58, 60, 62, 64, 66, 68, 70, 72, 74, 100, 102, 104, 106, 108, 110, 112, 114, 116, 124, 126, 128, 130, 132, 154, 156, 158, 160, 162, 164, 166, 168, 170, 172, 174, 176, 178, 180, 194, 196, 198, 200, 202, 204, 206, 208;
• and
• d. sequences complementary to the sequences of (a) (b) and (c);
• for use In the detection of orthosomycin-genes, orthosomycin gene fragments, orthosomycin gene clusters and orthosomycin producing organisms.

A computer readable medium having stored thereon a sequence selected from the group consisting of:

• a SEQ ID NOS:
• 210, 212, 214, 216, 218, 220, 222, 224, 226, 228, 230, 232, 234, 236, 238, 240, 242, 244;
• b. fragments of SEQ ID NOS:
• 210, 212, 214, 216, 218, 220, 222, 224, 226, 228, 230, 232, 234, 236, 238, 240, 242, 244 comprising at least 10 consecutive nucleotides of SEQ ID NOS:
• 210, 212, 214, 216, 218, 220, 222, 224, 226, 228, 230, 232, 234, 236, 238, 240, 242, 244;
• c. nucleotide sequences having at least 70% identical to SEQ ID NOS:
• 210, 212, 214, 216, 218, 220, 222, 224, 226, 228, 230, 232, 234, 236, 238, 240, 242, 244, or 70% identical to fragments of SEQ ID NOS:
• 210, 212, 214, 216, 218, 220, 222, 224, 226, 228, 230, 232, 234, 236, 238, 240, 242, 244;
• and
• d. sequences complementary to the sequences of (a) (b) and (c);
• for use in identifying everninomycin-type orthosomycin genes, gene fragments, gene clusters or everninomycin-type orthosomycin-producing organisms.

A computer readable medium having stored thereon a sequence selected from the group consisting of:

• a. SEQ ID NOS:
• 246, 248, 250, 252, 254, 256 and the nucleic acid sequences corresponding to Genbank accession nos. AAG32068, AAK83183, AAG32069, AAK83172, AAK83171 and MK83175;
• b. fragments of SEQ ID NOS:
• 246, 248, 250, 252, 254, 256 and the nucleic acid sequences corresponding to Genbank accession nos. AAG32068, AAK83183, AAG32069, AAK83172, AAK83171 and AAK83175 comprising at least 10 consecutive nucleotides of SEQ ID NOS:
• 246, 248, 250, 252, 254, 256 and the nucleic acid sequences corresponding to Genbank accession nos. AAG32068, AAK3183, AAG32069, AAK83172, AAK83171 and AAK83175;
• c. nucleotide sequences 70% identical to SEQ ID NOS:
• 246, 248, 250, 252, 254, 256 or the nucleic acid sequences corresponding to Genbank accession nos. AAG32068, AAK83183, AAG32069, AAK83172, AAK83171 and AAK83175;
• or 70% identical to fragments of SEQ ID NOS:
• 246, 248, 250, 252, 254, 256 or the nucleic acid sequences corresponding to Genbank accession nos AAG32068, AAK83183, AAG32069, AAK83172, AAK3171 and AAK83175;
• and
• d. sequences complementary to the sequences of (a) (b) and (c);
• for use in identifying avilamycin-type orthosomycin genes, gene fragments, gene clusters or avilamycin-type orthosomycin producing organisms.