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Table 3 Information on the insertion sites and Luc expression of the different transformants. Five low and five high Luc expressors were collected and analyzed for the characterization of the insertion site both for Agrobacterium transformation and electroporation. The first column reports the name of the transformant selected (see Additional file 7: Table S4). Luc activity of the transformants at the 3rd and 20th subculture in selective medium is expressed as average values of CPS (counts per second) normalized for 105 cells ± standard deviation of three biological replicates. Chr #: chromosome number in which DNA integration occurred. Insertion points were determined from the Chlamydomonas reinhardtii structural annotation v5.5 [32]. Gene annotation was taken from the Chlamydomonas reinhardtii functional annotation v 5.5 [32]. Gene expression refers to RNA-Seq experiments conducted on wild type cells grown in TAP medium [32, 36] and are reported in FPKM (fragments per kilobase per million mapped fragments)

From: Agrobacterium-mediated and electroporation-mediated transformation of Chlamydomonas reinhardtii: a comparative study

Transformant

Luc activity 3rd subculture

Luc activity 20th subculture

Chr #

Insertion point

Gene name

Gene annotation

Gene expression (FPKM)

CPS ± sd

CPS ± sd

Transformation method: Agrobacterium

 B 20

9 ± 2

8 ± 1

8

Gene (3′ UTR)

Cre08.g381050

Senescence-associated gene 12

4.65

 A 14

38 ± 11

18 ± 2

1

Gene (exon)

Cre01.g051900

Ubiquinol-cytochrome C reductase iron-sulfur subunit

166.65

 B 9

5 ± 1

64 ± 12

12

Gene (5′UTR)

Cre12.g486000

n.a.

1.49

 B 12

7 ± 1

69 ± 13

17

Gene (exon)

Cre17.g736700

n.a.

0

 A 18

48 ± 10

16 ± 2

1

Gene (exon)

Cre01.g015250

DNA binding; DNA-directed DNA polymerases

4.13

 A 6

13,306 ± 1218

6979 ± 926

3

Gene (exon)

Cre03.g204200

n.a.

0

 A 7

19,240 ± 1945

21,210 ± 1694

n.d.

n.d.

n.d.

n.d.

n.d.

 B 4

15,202 ± 2795

8006 ± 1259

9

Gene (5′UTR)

Cre09.g398067

Rotamase FKBP 1

9.45

 B 6

12,460 ± 1239

7751 ± 643

17

Gene (exon)

Cre17.g699600 Cre08.g377150

Sedoheptulose-bisphosphatase

14.62

   

8

Gene (exon)

n.a.

18.19

 B 11

16,458 ± 892

8762 ± 831

8

Gene (3′ UTR)

Cre08.g379400

n.a.

2.95

Transformation method: Electroporation

 A 2

7 ± 3

49 ± 6

12

Gene (3′ UTR)

Cre12.g560450

n.a.

3.08

 A 3

2 ± 0

68 ± 9

1

Gene (exon)

Cre01.g014150

MATE efflux family protein

5.20

4

Gene (exon)

Cre04.g223550

n.a.

0.42

 A 4

4 ± 1

24 ± 5

13

Gene: 3′ UTR

Cre13.g569850

Ammonium transporter 1;2

0.89

 A 5

37 ± 11

61 ± 7

12

Gene (exon)

Cre12.g559450

Calcium-dependent lipid-binding family protein

37.98

 A 7

1 ± 1

21 ± 5

11

Gene (exon)

Cre11.g467556

n.a.

2.73

5

Gene (5′UTR)

Cre05.g232100

n.a.

6.87

 A 10

17,849 ± 1022

16,393 ± 3650

3

Gene (3′ UTR)

Cre03.g186050

n.a.

1.26

 A 11

11,347 ± 645

3932 ± 771

2

2 Genes, both 3′UTR

Cre02.g098700;

ABC-2 type transporter family protein

0.63

 

Intergenic region

Cre02.g098750

STELAR K+ outward rectifier

2.77

8

 

/

 

/

 B 11

17,253 ± 1316

20,099 ± 2464

3

Gene (intron)

Cre03.g165700

Pyruvate decarboxylase-2

87.52

 A 18

13,348 ± 753

15,958 ± 1918

3

Intergenic region

/

/

/

 B 18

12,482 ± 499

13,977 ± 1959

16

Intergenic region

/

/

/

  1. n.d. not determined, n.a. not available