3.10 Transcriptome analysis after T. laevis and T.
controversa infection
In order to known the transcriptional changes in wheat anther
developmental stages after T. laevis and T. controversainfection, we analyzed anthers of different lengths including;
0~150 μm, 150~400 μm,
400~700 μm, 700~1100 μm and
1100~1300 μm by RNA-Seq. The raw reads were obtained by
removing the adaptor sequence, ambiguous bases, and low-quality
sequences. For T. laevis , approximately, 70.74 (control-2-3) to
91.88 (control-2-2) million clean reads were obtained from control
samples and their mapping rate were 85.76% to 69.10%, respectively,
and clean reads in T. laevis infected samples were 75
(infected-5-2) to 108.29 (infected-2-3) million reads and their mapping
rate were 68.57% to 83.39%, respectively. The Q20, Q30, GC content and
mapped reads of above mentioned transcripts ranged from 98.51 to 98.76
%, 95.56 to 96.17%, 52.89 to 54.98% and 51.94 to 90.30 million,
respectively (Table 1 ). For T. controversa ,
approximately 89.77 (control-2-3) to 104.68 (control-2-2) million clean
reads were obtained from control samples and their mapping rate were
87.26 % to 87.04%, respectively, and clean reads in T.
controversa infected samples were 88.30 (infected-1-1) to 121.96
(infected-5-3) million reads and their mapping rate were 82.62 % to
83.71%, respectively. The Q20, Q30, GC content and mapped reads of
above mentioned transcripts ranged from 98.24 to 98.52%, 94.78 to
95.46%, 53.16 to 54.77 % and 74.33 to 92.40 million, respectively
(Table S2 ). In order to clarify the reproducibility between
samples, we analyzed and calculated the individual correlation
coefficients between samples through principal component analysis (PCA).
The biological replicates of each treatment were clustered together to
prove that there was good repetition between replicates and there were
differences between treatments for T. controversa (FigureS3A ) and for T. laevis (Figure S3B ).