Difference between revisions of "Team:FAFU-CHINA/Notebook"

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T--FAFU-CHINA--UV-1.png	https://2016.igem.org/File:T--FAFU-CHINA--UV-1.png
T--FAFU-CHINA--confocal1.png	https://2016.igem.org/File:T--FAFU-CHINA--confocal1.png
T--FAFU-CHINA--screened1.png	https://2016.igem.org/File:T--FAFU-CHINA--screened1.png\
T--FAFU-CHINA--.png	https://2016.igem.org/File:T--FAFU-CHINA--cultivate.png
T--FAFU-CHINA--.png	https://2016.igem.org/File:T--FAFU-CHINA--UV-0.png

 

 

 

Week 1 (5.16-5.22）

Before the first week, we cultivated Chlamydomonas reinhardtii.

<img title="" alt="本地图片，请重新上传"> 

 

We sent our reserved parts to SYSU-CHINA team and ShanghaiTechChina_B team to help them to finish project.

 

BBa-k325903 Plate1 2L

BBa-k 415023 Plate1 2P

BBa-k325909 Plate1 4L      

BBa-k934012 Plate1 5H

BBa-k934022 Plate1 5J         

BBa-k934026      Plate1 5L

BBa-k516011 Plate1 9G

BBa-k546001 Plate1 12F

BBa-k584002 Plate1 13E           

BBa-k594001 Plate1 18I

BBa-k381001 Plate1 4B

BBa- E0040       Plate4 13L

 

 

We distributed questionnaires about mosquito-borne diseases in China.

Week 2（5.23-5.29）

We designed primers for  Cry4a,Cry10a, Cry11a,Cyt1,Cyt2,EGFP genes. The genes from Bacillus thuringiensis serovar israelensis strain BRC-LLP29

Name Sequence length

Cry11Aa4-In-BglII-Short-F CCATACAGTTCTAGAGAATGAATTATATGGAAGATAGT 38

Cry11Aa4-In-NdeI-Short-R CGGAGCGGAATCATATCGGATTAAT 25

Cry4Aa4-In-BglII-Short-F CCATACAGTTCTAGAGAATGAATCCTTATCAAAATAAA 38

Cry4Aa4-In-NdeI-Short-R CGGAGCGGAATCATATTCACTCG 23

Cry10Aa4-In-BglII-Short-F CCATACAGTTCTAGAGAATGAATCCATATCAAAATAAG 38

Cry10Aa4-In-NdeI-Short-R CGGAGCGGAATCATATATACAGATTGA 27

Cry4b-In-BglII-Short-F CCATACAGTTCTAGAGAATGTGTGAAAATAACCAA 35

Cry4b-In-NdeI-Short-R CGGAGCGGAATCATATTTATTTTGA 25

Cyt1-In-BglII-Short-F CCATACAGTTCTAGAGAATGGAAAATTTAAATCATTGT 38

Cyt1-In-NdeI-Short-R CGGAGCGGAATCATATTTAGAGGGT 25

Cyt2-In-BglII-Short-F CCATACAGTTCTAGAGAATGCACCTTAATAATTTGAAT 38

Cyt2-In-NdeI-Short-R CGGAGCGGAATCATATTTATTTTATTGG 28

EGFP-In-BglII-F CCATACAGTTCTAGAGAATGGTGAGCAAG 29

EGFP-In-NdeI-R CGGAGCGGAATCATATCTTGTACAG 25

 

Week 3（5.30-6.5）

Molecular cloning of Cry4a,Cry4b,Cry10a, Cry11a,Cyt1,Cyt2,EGFP genes.Vector is pChlamy-3.

PCR

        goto cycles

1 Pre-denaturation 94°C 2 min    

2 Denaturation 98°C 10 sec    

3 Extension 68°C 30 sec/kb 2 25~45

4 Final Extension 68°C 5min    

 

  template Product length Result

Cry11A Bt-1 1959bp X

Cry4Aa Bt-1 3573bp X

Cry4b Bt-1 1818bp X

Cry10A Bt-1 2058bp X

Cyt1 Bt-1 780bp X

Cyt2 Bt-1 819bp X

EGFP pK7GWF2 747bp √

Analysis of Negative Result： Annealing reaction was not set.

 

Week 4 (6.6-6.11)

PCR

        goto cycles

1 Pre-denaturation 94°C 2 min    

2 Denaturation 98°C 10 sec    

3 Annealing 58℃ 30sec    

4 Extension 68°C 30 sec/kb 2 25~45

5 Final Extension 68°C 5min    

 

      Product length Result

M Trans2K Plus DNA Ladder      

1 Cry11A Bt-2 1959bp √

2 Cry4Aa Bt-2 3573bp  

3 Cry10A Bt-2 2058bp √

4 Cry4b Bt-2 1818bp √

5 Cyt1 Bt-2 780bp √

6 Cyt2 Bt-2 819bp √

7 Cry11A Bt-3 1959bp √（Non-specific）

8 Cry4Aa Bt-3 3573bp  

10 Cry10A Bt-3 2058bp √（Non-specific）

9 Cry4b Bt-3 1818bp  

11 Cyt1 Bt-3 780bp √（Non-specific）

12 Cyt2 Bt-3 819bp √

13 Cry11A Bt-4 1959bp X（Non-specific）

14 Cry4Aa Bt-4 3573bp （Non-specific）

16 Cry10A Bt-4 2058bp √（Non-specific）

15 Cry4b Bt-4 1818bp √（Non-specific）

17 Cyt1 Bt-4 780bp √（Non-specific）

18 Cyt2 Bt-4 819bp √（Non-specific）

M Trans2K Plus DNA Ladder      

1 Cry11A Colony 1959bp X

2 Cry4Aa Colony 3573bp X

3 Cry4b Colony 1818bp √

4 Cry10A Colony 2058bp X

5 Cyt1 Colony 780bp X

6 Cyt2 Colony 819bp √

7 Cry11A Colony 1959bp X

8 Cry4Aa Colony 3573bp X

9 Cry4b Colony 1818bp X

10 Cry10A Colony 2058bp X

11 Cyt1 Colony 819bp √

12 Cyt2 Colony 1959bp √

M Trans2K Plus DNA Ladder      

 

<img title="" alt="本地图片，请重新上传"> 

 

PCR

        goto cycles

1 Pre-denaturation 94°C 2 min    

2 Denaturation 98°C 10 sec    

3 Annealing 58℃ 30sec    

4 Extension 68°C 30 sec/kb 2 25~45

5 Final Extension 68°C 5min    

 

    template Primer-F Primer-R Product length Result

1 EGFP pK7GWF2 EGFP-In-BglII-F EGFP-In-NdeI-R 747bp √

2 EGFP pK7GWF2 EGFP-In-BglII-F EGFP-In-NdeI-R 747bp √

Gel Extraction

    Result

1 EGFP √

2 EGFP √

estriction enzyme digestion

  enzyme template

1 BglII&NdeI pChlamy-3

2 BglII&NdeI pChlamy-3

Purification of enzyme digest product

 

In-Fusion

10μl Total Volume

2 μl 5X In-Fusion HD Enzyme Premix

3μl Linearized Vector

4μl Purified PCR Fragment

1μl dH2O (as needed)

Incubate the reaction for 15 min at 50 °C, then place on ice.

Continue to the Transformation Procedure.

1 EGFP+pChlamy_3

2 EGFP+pChlamy_3

 

Week 5 (6.12-6.18)

On 17th June, Junhao visited the Shenzhen University and their team (SZU-China) after Synthesis Biology Meeting.

PCR：Cry4a,Cry10a, Cry11a,Cyt1,Cyt2

Agarose gel electrophoresis

Purification of PCR product or Gel extract

Gel extraction

Double enzyme digest of plasmid

Purification of enzyme digest product

Agarose gel electrophoresis

In-fusion

Transformation

 

Week 6 (6.19-6.25)

We try to UV irradiation of Bacillus thuringiensis, We need to determine the Bacillus thuringiensis concentration.

<img title="" alt="本地图片，请重新上传"> 

Production of summer anti-mosquito handbook

 

Week 7 (6.26-7.2)

UV irradiation of Bacillus thuringiensis. 

<img title="" alt="本地图片，请重新上传"> 

 

Week 8 (7.3-7.9)

UV irradiation of Bacillus thuringiensis. 

 

We completed the first edition of the handbook.

Week 9 (7.10-7.16)

Codon optimization of Chlamydomonas reinhardtii by synbio-tech

 

Week 10 (7.17-7.23)

Gene synthesis by synbio-tech

 

Week 11 (7-24.7.30)

Cloning of the genes with codon optimization in Chlamydomonas reinhardtii  ，Vector is pChlamy-3.

 

Week 12 (7.31-8.6)

We got a chance to study at department of Health Education in Jiangxi Provincial Institute of Parasitic Disease for half a day.

Week 13 (8.7-8.13)

We noticed that the fluorescence value in treatment group was higher than the positive control group about JNFLS-CHINA high school team’s project. We had a talk about it by social media. To explore the potential cause, we advised them to use Flow Cytometer (FCM) to gather data. And we helped them design the protocol of experiment with details. If you are interested in the details, you can visit this link: <a href="https://2016.igem.org/Team:JNFLS_China/experiments">https://2016.igem.org/Team:JNFLS_China/experiments</a> and results

 

Week 14 (8.14-8.20)

During the G20 Summit held in Hangzhou, we shared our labs with them in summer.

 

Week 15 (8.21-8.27)

We Identified the production of the clone.

Transforming Chlamydomonas reinhardtii by Electroporation.

Week 16 (8.28-9.3)

We used confocal microscopy to observe the expression of GFP, and this transformation was negative.

<img title="" alt="本地图片，请重新上传"> 

 

We participated in the CCIC (Central China iGEM Consortium) held in Zhongshan University in Guangzhou.

 

Week 17 (9.4-9.10)

Transforming Chlamydomonas reinhardtii by Electroporation again.

 

We helped NEU-China to test the expression of tCas9-CIBN and got the accurate data about the induced concentration of arabinose.

 

Week 18 (9.11-9.17)

 

 

Week 20 (9.18-9.24)

We screened the transformants of C. reinhardtii. The greens in the figure are positive for transformation.

<img title="" alt="本地图片，请重新上传"> 

 

 

We designed the qPCR primers use of detection Cry4a,Cry10a,Cry11a,Cyt1,Cyt2 genes expression.

cry4a-qPCR1-F-133 ACGACCAGATGGAGGCCAAG 20

cry4a-qPCR1-R-133 TACTGGATCTGGGCCAGGGT 20

cry4a-qPCR2-F-70 CCAGGACAGCCACCAGTTCA 20

cry4a-qPCR2-R-70 CACGCCGATGTTCTCGTTGG 20

cry10a-qPCR1-F-94 CGCAACAAGCCCATCGACAA 20

cry10a-qPCR1-R-94 CCTCGCTGCTGTTGCTGAAG 20

cry10a-qPCR2-F-84 TTCGGCTACGTGACCTTCCC 20

cry10a-qPCR2-R-84 GGTGCCGTACAGGGTCATCA 20

cry11a-qPCR1-F-85 CGAGTGGGTGGACTTCGTGA 20

cry11a-qPCR1-R-85 GATGCTGAACAGGGCGTTGG 20

cry11a-qPCR2-F-69 CCAACGCCCTGTTCAGCATC 20

cry11a-qPCR2-R-69 ACAGCTGGCTCAGGTACCAC 20

cyt1-qPCR1-F-136 ACAACGTGCTGTTCGCCATC 20

cyt1-qPCR1-R-136 TTGTAGCTGGCGGAGTCCTG 20

cyt1-qPCR2-F-123 AACAAGGTGCTGGAGGTGCT 20

cyt1-qPCR2-R-123 GGCCTCGTTCTTCTGGGTGT 20

cyt2-qPCR1-F-137 CAGACCATCGAGGTGAGCGT 20

cyt2-qPCR1-R-137 GGCTCCAGGTTGGTGAAGGT 20

cyt2-qPCR2-F-99 GCCTTCGAGATCACCGTGGA 20

cyt2-qPCR2-R-99 CACGGTCAGGGCCTTCATCT 20

egfp-qPCR1-F-64 GGCCACAAGTTCAGCGTGAG 20

egfp-qPCR1-R-64 TCAGGGTCAGCTTGCCGTAG 20

egfp-qPCR2-F-140 GCCGACAAGCAGAAGAACGG 20

egfp-qPCR2-R-140 TAGTGGTTGTCGGGCAGCAG 20

 

Week 21 (9.25-10.1)

 

 

 

Week 22 (10.2-10.8)

Extract RNA

RT-PCR

QPCR

 

 

Week 23 (10.9-10.15)