BBa_K1634005 1 BBa_K1634005 pmyo3 (a promoter in C.elegans) 2015-09-13T11:00:00Z 2015-09-14T12:26:39Z We get Pmyo3 from the C.elegans' genomic DNA by PCR. "myo-3 encodes MHC A, the minor isoform of MHC (myosin heavy chain) that is essential for thick filament formation, and for viability, movement, and embryonic elongation; expressed in body muscle, the somatic sheath cell covering the hermaphrodite gonad, and also expressed in enteric muscle, vulval muscles of the hermaphrodite and the diagonal muscles of the male tail. "(from Wormatlas) Since we want to control the C.elegans' movement,we decided to use pmyo-3 (promoter of myo-3) to construct a plasmid which can drive the expression in the worm???s body muscle. false false _2051_ 0 24399 24399 9 Not in stock false Since we use the restriction enzyme site to do the ligation, we should pay attention to the sequence of Pmyo3, avoiding using the restriction site exits in it. false Xinhong Chen annotation2453687 1 pmyo-3 range2453687 1 1 814 BBa_K1634003 1 BBa_K1634003 ChR2-YFP ( a kind of channelrhodopsin ) 2015-09-12T11:00:00Z 2015-09-13T11:52:49Z ChR2 is a channelrhodopsin in green algae, but we didn't get it directly from the algae. Instead, we get ChR2 from some plamids by PCR. ChR2 is a kind of channelrhodopsin. Channelrhodopsins are a subfamily of retinylidene proteins (rhodopsins) that function as light-gated ion channels.[1] They serve as sensory photoreceptors in unicellular green algae, controlling phototaxis: movement in response to light.[2] When we express the channelrhodopsins in some specific cells in organisms and shed specific light on them, we can activate or supress the specific ion channel to change the activity of the cell. And if the cell is a muscle cell or a neuron, this tiny change may trigger a great change in the organism's activity. To make it easier to confirm the location and expression level of the ChR2, we construct a fusion protein of ChR2 and YFP. false false _2051_ 24399 24399 9 false Since we use the restriction enzyme site to do the ligation, we should pay attention to the sequence of ChR2-YFP, avoiding using the restriction site exits in it. false Xinhong Chen annotation2453249 1 ChR2-YFP range2453249 1 1 1809 BBa_K1634004 1 BBa_K1634004 pmyo3-ChR2-YFP ( C.elegans ) 2015-09-13T11:00:00Z 2015-09-15T09:55:48Z We get Pmyo3 from the C.elegans' genomic DNA by PCR. ChR2 is a channelrhodopsin in green algae, but we didn't get it directly from the algae. Instead, we get ChR2 from some plamids by PCR. Then we ligated the Pmyo3 into PPD95.75, a vector commonly used in C.elegans. Finally, we construted the fused protein, ChR2-YFP,and ligated it into PPD95.75_Pmyo3. ???myo-3 encodes MHC A, the minor isoform of MHC (myosin heavy chain) that is essential for thick filament formation, and for viability, movement, and embryonic elongation; expressed in body muscle, the somatic sheath cell covering the hermaphrodite gonad, and also expressed in enteric muscle, vulval muscles of the hermaphrodite and the diagonal muscles of the male tail. ???(from Wormatlas) Since we want to control the C.elegans' movement.We decided to use pmyo-3 (promoter of myo-3) to construct a plasmid which can drive the expression in the worm???s body muscle.ChR2 is a kind of channelrhodopsin. Channelrhodopsins are a subfamily of retinylidene proteins (rhodopsins) that function as light-gated ion channels.[1] They serve as sensory photoreceptors in unicellular green algae, controlling phototaxis: movement in response to light.[2] When we express the channelrhodopsins in some specific cells in organisms and shed specific light on them, we can activate or supress the specific ion channel to change the activity of the cell. According to this thought in optogenetic, we linked the Pmyo2，specific promoter in the muscle of head, with the ChR2, then we use the light source assembled by ourselves to shed light of specific wave on the C.elegans,changging the condition of the muscle. Since we have learned that the chosing of direction in C.elegans depends on the muscle in the head, we can observe the obvious change in moving pattern of the C.elegans after we shed the light. In other words,we try to construct a light-sensed locomotion controlling system in C.elegans. And we achieve that goal by using this part to control the movement of the head, the movement of the whole C.elegans. References: 1. Nagel G, Ollig D, Fuhrmann M, Kateriya S, Musti AM, Bamberg E, Hegemann P (June 2002). "Channelrhodopsin-1: a light-gated proton channel in green algae". Science 296 (5577): 2395???8. doi:10.1126/science.1072068 2. Sineshchekov OA, Jung KH, Spudich JL (June 2002). "Two rhodopsins mediate phototaxis to low- and high-intensity light in Chlamydomonas reinhardtii". Proc. Natl. Acad. Sci. U.S.A. 99 (13): 8689???94. doi:10.1073/pnas.122243399. false false _2051_ 0 25024 24399 9 It's complicated Not in stock false Since we use the restriction enzyme site to do the ligation, we should pay attention to the sequence of Pmyo3 and ChR2-YFP, avoiding using the restriction site exits in it. false Xinhong Chen component2455107 1 BBa_K1634003 component2455105 1 BBa_K1634005 annotation2455105 1 BBa_K1634005 range2455105 1 1 814 annotation2455107 1 BBa_K1634003 range2455107 1 821 2629 BBa_K1634004_sequence 1 aggaaccgattgatgatttggaaaatccagctttacctgtgtaagaactgaaaagtttcataaccctagggtattcccagttacattccccactggctaacaatagcacccagtttttcatcacctttcttcaaatttctcggcgatttgttaaaaacaaaatttgtgtcccttctctgatatctctatgtctctaaacacaagttcatcggaaaacgaaggagggtaggtgttggttgggctcccgaagtgaaaatagaagagcaagaatagaatattagagagagagtgcagagagggcgggatagctcccgggattccgttttcttcttctttatcttcaacgatgatgtgtgtgcgtgttgtatagattctgttgctcccccacaactcgctccgaaggctcaatacaattcaattgatattggaggagagcctaccggagtgggaggataagaagaaacataagaagaagaagaagaagaagcatgcttctggtttttgatgctatgaaaacggcacaaaaagatgattgaggtcccttttcaataccttctctcatctttcaaatcccattgaaacctaaaacttctcaccacgctttaccattgttctccaaaaacttatagcaatgtctataacttttttatctctgaaaagcagtgttccatttttctttttcctattttatttcaattgtttctcacatttcgtttggattctttgcttgtcaaccagcttcttcttccacttttaccgtctaattttcagggcagggagccatcaaacccacgaccactagatccatgtagaatactagatggattatggaggcgccctgagtgccgttgggcgcgagctgctatttgtaacgaacccagtagtcgtcaatggctctgtacttgtgcctgaggaccagtgttactgcgcgggctggattgagtcgcgtggcacaaacggtgcccaaacggcgtcgaacgtgctgcaatggcttgctgctggcttctccatcctactgcttatgttttacgcctaccaaacatggaagtcaacctgcggctgggaggagatctatgtgtgcgctatcgagatggtcaaggtgattctcgagttcttcttcgagtttaagaacccgtccatgctgtatctagccacaggccaccgcgtccagtggttgcgttacgccgagtggcttctcacctgcccggtcattctcattcgcctgtcaaacctgacgggcttgtccaacgactacagcaggcgcaccatgggtctgcttgtgtctgatattggcacaattgtgtggggcgccacttccgccatggccaccggatacgtcaaggtcatcttcttctgcctgggtctgtgttatggtgctaacacgttctttcacgctgccaaggcctacatcgagggttaccacaccgtgccgaagggccggtgtcgccaggtggtgactggcatggcttggctcttcttcgtatcatggggtatgttccccatcctgttcatcctcggccccgagggcttcggcgtcctgagcgtgtacggctccaccgtcggccacaccatcattgacctgatgtcgaagaactgctggggtctgctcggccactacctgcgcgtgctgatccacgagcatatcctcatccacggcgacattcgcaagaccaccaaattgaacattggtggcactgagattgaggtcgagacgctggtggaggacgaggccgaggctggcgcggtaccggtagaaaaaatgagtaaaggagaagaacttttcactggagttgtcccaattcttgttgaattagatggtgatgttaatgggcacaaattttctgtcagtggagagggtgaaggtgatgcaacatacggaaaacttacccttaaatttatttgcactactggaaaactacctgttccatgggtaagtttaaacatatatatactaactaaccctgattatttaaattttcagccaacacttgtcactactttcggttatggtcttcaatgcttcgccagatacccagatcatatgaaacagcatgactttttcaagagtgccatgcccgaaggttatgtacaggaaagaactatatttttcaaagatgacgggaactacaagacacgtaagtttaaacagttcggtactaactaaccatacatatttaaattttcaggtgctgaagtcaagtttgaaggtgatacccttgttaatagaatcgagttaaaaggtattgattttaaagaagatggaaacattcttggacacaaattggaatacaactataactcacacaatgtatacatcatggcagacaaacaaaagaatggaatcaaagttgtaagtttaaacatgattttactaactaactaatctgatttaaattttcagaacttcaaaattagacacaacattgaagatggaagcgttcaactagcagaccattatcaacaaaatactccaattggcgatggccctgtccttttaccagacaaccattacctgtcctaccaatctgccctttcgaaagatcccaacgaaaagagagaccacatggtccttcttgagtttgtaacagctgctgggattacacatggcatggatgaactatacaaatag BBa_K1634003_sequence 1 atggattatggaggcgccctgagtgccgttgggcgcgagctgctatttgtaacgaacccagtagtcgtcaatggctctgtacttgtgcctgaggaccagtgttactgcgcgggctggattgagtcgcgtggcacaaacggtgcccaaacggcgtcgaacgtgctgcaatggcttgctgctggcttctccatcctactgcttatgttttacgcctaccaaacatggaagtcaacctgcggctgggaggagatctatgtgtgcgctatcgagatggtcaaggtgattctcgagttcttcttcgagtttaagaacccgtccatgctgtatctagccacaggccaccgcgtccagtggttgcgttacgccgagtggcttctcacctgcccggtcattctcattcgcctgtcaaacctgacgggcttgtccaacgactacagcaggcgcaccatgggtctgcttgtgtctgatattggcacaattgtgtggggcgccacttccgccatggccaccggatacgtcaaggtcatcttcttctgcctgggtctgtgttatggtgctaacacgttctttcacgctgccaaggcctacatcgagggttaccacaccgtgccgaagggccggtgtcgccaggtggtgactggcatggcttggctcttcttcgtatcatggggtatgttccccatcctgttcatcctcggccccgagggcttcggcgtcctgagcgtgtacggctccaccgtcggccacaccatcattgacctgatgtcgaagaactgctggggtctgctcggccactacctgcgcgtgctgatccacgagcatatcctcatccacggcgacattcgcaagaccaccaaattgaacattggtggcactgagattgaggtcgagacgctggtggaggacgaggccgaggctggcgcggtaccggtagaaaaaatgagtaaaggagaagaacttttcactggagttgtcccaattcttgttgaattagatggtgatgttaatgggcacaaattttctgtcagtggagagggtgaaggtgatgcaacatacggaaaacttacccttaaatttatttgcactactggaaaactacctgttccatgggtaagtttaaacatatatatactaactaaccctgattatttaaattttcagccaacacttgtcactactttcggttatggtcttcaatgcttcgccagatacccagatcatatgaaacagcatgactttttcaagagtgccatgcccgaaggttatgtacaggaaagaactatatttttcaaagatgacgggaactacaagacacgtaagtttaaacagttcggtactaactaaccatacatatttaaattttcaggtgctgaagtcaagtttgaaggtgatacccttgttaatagaatcgagttaaaaggtattgattttaaagaagatggaaacattcttggacacaaattggaatacaactataactcacacaatgtatacatcatggcagacaaacaaaagaatggaatcaaagttgtaagtttaaacatgattttactaactaactaatctgatttaaattttcagaacttcaaaattagacacaacattgaagatggaagcgttcaactagcagaccattatcaacaaaatactccaattggcgatggccctgtccttttaccagacaaccattacctgtcctaccaatctgccctttcgaaagatcccaacgaaaagagagaccacatggtccttcttgagtttgtaacagctgctgggattacacatggcatggatgaactatacaaatag BBa_K1634005_sequence 1 aggaaccgattgatgatttggaaaatccagctttacctgtgtaagaactgaaaagtttcataaccctagggtattcccagttacattccccactggctaacaatagcacccagtttttcatcacctttcttcaaatttctcggcgatttgttaaaaacaaaatttgtgtcccttctctgatatctctatgtctctaaacacaagttcatcggaaaacgaaggagggtaggtgttggttgggctcccgaagtgaaaatagaagagcaagaatagaatattagagagagagtgcagagagggcgggatagctcccgggattccgttttcttcttctttatcttcaacgatgatgtgtgtgcgtgttgtatagattctgttgctcccccacaactcgctccgaaggctcaatacaattcaattgatattggaggagagcctaccggagtgggaggataagaagaaacataagaagaagaagaagaagaagcatgcttctggtttttgatgctatgaaaacggcacaaaaagatgattgaggtcccttttcaataccttctctcatctttcaaatcccattgaaacctaaaacttctcaccacgctttaccattgttctccaaaaacttatagcaatgtctataacttttttatctctgaaaagcagtgttccatttttctttttcctattttatttcaattgtttctcacatttcgtttggattctttgcttgtcaaccagcttcttcttccacttttaccgtctaattttcagggcagggagccatcaaacccacgaccactagatccatgtagaa igem2sbol 1 iGEM to SBOL conversion Conversion of the iGEM parts registry to SBOL2.1 Chris J. Myers James Alastair McLaughlin 2017-03-06T15:00:00.000Z