| Detailed Information for Phage YellowPanda | |
| Discovery Information | |
| Isolation Host | Microbacterium foliorum NRRL B-24224 |
| Found By | Travis Kryszewski |
| Year Found | 2021 |
| Location Found | Tampa, FL USA |
| Finding Institution | Hillsborough Community College |
| Program | Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science |
| From enriched soil sample? | No |
| Isolation Temperature | 95°C |
| GPS Coordinates | 28.059883 N, 82.515914 W Map |
| Discovery Notes | Overview- Acquired soil from grass patch within 6 feet of a palm tree that was composted and fully decomposed into the soil a month prior. used sterilized plastic spoon to gather soil, soil was scooped into a ziplock sandwich bag, and lightly mixed to ensure a broad collect from full soil level extracted. * Depth 2 1/2 all soil was used * Water content moist * Light level- very shady, moody light * Temp 95F atmospheric * Rainfall Heavy within the past 6 hours rained * Health - Soil was very healthy, rich, black, teaming with nearby lush greenery and foliage, many insects and a teeming ecosystem. Protocol used 5.2 NOTE- Small changes to protocol, in that some steps were altered or followed differently, the scooping device was a sterilized in isopropyl rubbing alcohol, and ziplock baggy was not inverted and instead had sample directly scooped into it due to it being too small to invert and grasp the soil. Once soil was within baggy it was lightly mixed to ensure bacteria at surface and bottom level of the 2 1/2 inch soil extract were mixed to ensure all bacteria were included. ADDITIONAL NOTE Extraction site had a malodor distinct to Microbacterium foliorum NRRL B-24224 |
| Naming Notes | Yellow panda, it was named "Yellow" given the fact that the bacteria we used to culture it is yellow, Panda due to phage and panda similarities and marketability. A panda only eats bamboo, and only certain species of bamboo, both are highly specialized beings that only eat certain things, and it is also an incredibly friendly name overall. If you say you are to be injecting someone with PRAXUS II they are not going to be as keenly open to the idea as opposed to saying hey were going to cure you by injecting you with yellow Panda. Its very friendly, and I find it builds both on my phages discovery and my fascinating correlation between phage and pandas. |
| Sequencing Information | |
| Sequencing Complete? | Yes |
| Date Sequencing Completed | Feb 3, 2022 |
| Sequencing Facility | Pittsburgh Bacteriophage Institute |
| Shotgun Sequencing Method | Illumina |
| Sequencer Used | Illumina MiSeq |
| Read Type | Single-end reads |
| Read Length | 150 bp |
| Approximate Shotgun Coverage | 2135 |
| Genome length (bp) | 53658 |
| Character of genome ends | Circularly Permuted |
| GC Content | 56.7% |
| Fasta file available? | Yes: Download fasta file |
| Characterization | |
| Cluster | EK |
| Subcluster | EK1 |
| Cluster Life Cycle | Unknown |
| Other Cluster Members |
Click to ViewEugeneKrabs (None) KingKamren (None) Zhengyi (None) Alex44 (EK1) ArMaWen (EK1) Biozilla (EK1) Birdfeeder (EK1) BlueRugrat (EK1) Corn21 (EK1) CrunchyBoi (EK1) Dashyla (EK1) DumpQuist (EK1) HitchHiker (EK1) JessellCookie (EK1) LesNorah (EK1) LilyLou (EK1) MiamiPanther (EK1) Oatly (EK1) Pabst (EK1) Phogo (EK1) PineapplePluto (EK1) Stormbreaker (EK1) SwissCheezer (EK1) TicTac (EK1) TinyTimothy (EK1) TownLake (EK1) Unphazed (EK1) Wesak (EK1) Xitlalli (EK1) YellowPanda (EK1) Akoni (EK2) AloeVera (EK2) Ashton (EK2) Astartes (EK2) Atraxi (EK2) Barroma (EK2) Fede (EK2) Fullmetal (EK2) JimmyPG (EK2) JordanFarm (EK2) Keough (EK2) Kosier (EK2) Mazun (EK2) Moleficent (EK2) Morrill (EK2) Pharky (EK2) Phedro (EK2) Phractured (EK2) PhriedRice (EK2) RicoCaldo (EK2) ShyRosie (EK2) StagePhright (EK2) ThirteenKH (EK2) TrippleS (EK2) Truong (EK2) Waterlily (EK2) Yafa (EK2) |
| Annotating Institution | Hillsborough Community College |
| Annotation Status | In GenBank |
| Plaque Notes | Lytic plaques diameter very small 0.5 mm in diameter to 0.75 mm very voracious usually results in total blowouts if not diluted. |
| Morphotype | Podoviridae |
| Number of Genes | 53 |
| Number of tRNAs | 0 |
| Number of tmRNAs | 0 |
| Has been Phamerated? | Yes |
| Gene List |
Click to ViewYellowPanda_1 YellowPanda_2 YellowPanda_3 YellowPanda_4 YellowPanda_5 YellowPanda_6 YellowPanda_7 YellowPanda_8 YellowPanda_9 YellowPanda_10 YellowPanda_11 YellowPanda_12 YellowPanda_13 YellowPanda_14 YellowPanda_15 YellowPanda_17 YellowPanda_18 YellowPanda_19 YellowPanda_20 YellowPanda_21 YellowPanda_22 YellowPanda_23 YellowPanda_24 YellowPanda_25 YellowPanda_26 YellowPanda_27 YellowPanda_30 YellowPanda_31 YellowPanda_32 YellowPanda_33 YellowPanda_34 YellowPanda_35 YellowPanda_36 YellowPanda_37 YellowPanda_38 YellowPanda_39 YellowPanda_40 YellowPanda_41 YellowPanda_42 YellowPanda_43 YellowPanda_44 YellowPanda_45 YellowPanda_46 YellowPanda_47 YellowPanda_48 YellowPanda_49 YellowPanda_50 YellowPanda_51 YellowPanda_52 YellowPanda_53 YellowPanda_54 YellowPanda_55 YellowPanda_56 |
| Submitted Minimal DNA Master File | Download |
| Publication Info | |
| Uploaded to GenBank? | Yes |
| GenBank Accession | PP405125 |
| Refseq Number | None yet |
| Archiving Info | |
| Archiving status | Archived |
| Pitt Freezer Box# | 136 |
| Pitt Freezer Box Grid# | H1 |
| Available Files | |
| Plaque Picture | Download |
| Restriction Digest Picture | Download |
| EM Picture | Download |
| GenBank File for Phamerator | Download |
