scholarly journals The dynamic landscape of fission yeast meiosis alternative-splice isoforms

2016 ◽  
Vol 27 (1) ◽  
pp. 145-156 ◽  
Author(s):  
Zheng Kuang ◽  
Jef D. Boeke ◽  
Stefan Canzar
2016 ◽  
Author(s):  
Zheng Kuang ◽  
Jef D. Boeke ◽  
Stefan Canzar

AbstractAlternative splicing increases the diversity of transcriptomes and proteomes in metazoans. The extent to which alternative splicing is active and functional in unicellular organisms is less understood. Here we exploit a single-molecule long-read sequencing technique and develop an open-source software program called SpliceHunter, to characterize the transcriptome in the meiosis of fission yeast. We reveal 17017 alternative splicing events in 19741 novel isoforms at different stages of meiosis, including antisense and read-through transcripts. Intron retention is the major type of alternative splicing, followed by “alternate intron in exon”. 887 novel transcription units are detected; 60 of the predicted proteins show homology in other species and form theoretical stable structures. We compare the dynamics of novel isoforms based on the number of supporting full-length reads with those of annotated isoforms and explore the translational capacity and quality of novel isoforms. The evaluation of these factors indicates that the majority of novel isoforms are unlikely to be both condition-specific and translatable but the possibility of functional novel isoforms is not excluded. Moreover, the co-option of these unusual transcripts into newly born genes seems likely. Together, this study highlights the diversity and dynamics at the isoform level in the sexual development of fission yeast.


2012 ◽  
Vol 41 (D1) ◽  
pp. D110-D117 ◽  
Author(s):  
Jose Manuel Rodriguez ◽  
Paolo Maietta ◽  
Iakes Ezkurdia ◽  
Alessandro Pietrelli ◽  
Jan-Jaap Wesselink ◽  
...  

2008 ◽  
Vol 69 (1) ◽  
pp. 300-309 ◽  
Author(s):  
Rajasree Menon ◽  
Qing Zhang ◽  
Yan Zhang ◽  
Damian Fermin ◽  
Nabeel Bardeesy ◽  
...  

Channels ◽  
2014 ◽  
Vol 8 (1) ◽  
pp. 62-75 ◽  
Author(s):  
Elizabeth Storer Scholl ◽  
Antonella Pirone ◽  
Daniel H Cox ◽  
R Keith Duncan ◽  
Michele H Jacob

Biology ◽  
2021 ◽  
Vol 10 (8) ◽  
pp. 712
Author(s):  
Patricia A. Thibault ◽  
Aravindhan Ganesan ◽  
Subha Kalyaanamoorthy ◽  
Joseph-Patrick W. E. Clarke ◽  
Hannah E. Salapa ◽  
...  

The hnRNP A/B family of proteins is canonically central to cellular RNA metabolism, but due to their highly conserved nature, the functional differences between hnRNP A1, A2/B1, A0, and A3 are often overlooked. In this review, we explore and identify the shared and disparate homeostatic and disease-related functions of the hnRNP A/B family proteins, highlighting areas where the proteins have not been clearly differentiated. Herein, we provide a comprehensive assembly of the literature on these proteins. We find that there are critical gaps in our grasp of A/B proteins’ alternative splice isoforms, structures, regulation, and tissue and cell-type-specific functions, and propose that future mechanistic research integrating multiple A/B proteins will significantly improve our understanding of how this essential protein family contributes to cell homeostasis and disease.


Chromosoma ◽  
2021 ◽  
Author(s):  
Da-Qiao Ding ◽  
Atsushi Matsuda ◽  
Kasumi Okamasa ◽  
Yasushi Hiraoka

AbstractThe structure of chromosomes dramatically changes upon entering meiosis to ensure the successful progression of meiosis-specific events. During this process, a multilayer proteinaceous structure called a synaptonemal complex (SC) is formed in many eukaryotes. However, in the fission yeast Schizosaccharomyces pombe, linear elements (LinEs), which are structures related to axial elements of the SC, form on the meiotic cohesin-based chromosome axis. The structure of LinEs has been observed using silver-stained electron micrographs or in immunofluorescence-stained spread nuclei. However, the fine structure of LinEs and their dynamics in intact living cells remain to be elucidated. In this study, we performed live cell imaging with wide-field fluorescence microscopy as well as 3D structured illumination microscopy (3D-SIM) of the core components of LinEs (Rec10, Rec25, Rec27, Mug20) and a linE-binding protein Hop1. We found that LinEs form along the chromosome axis and elongate during meiotic prophase. 3D-SIM microscopy revealed that Rec10 localized to meiotic chromosomes in the absence of other LinE proteins, but shaped into LinEs only in the presence of all three other components, the Rec25, Rec27, and Mug20. Elongation of LinEs was impaired in double-strand break-defective rec12− cells. The structure of LinEs persisted after treatment with 1,6-hexanediol and showed slow fluorescence recovery from photobleaching. These results indicate that LinEs are stable structures resembling axial elements of the SC.


Chromosoma ◽  
2019 ◽  
Vol 128 (3) ◽  
pp. 385-396 ◽  
Author(s):  
Dmitriy Li ◽  
Marianne Roca ◽  
Raif Yuecel ◽  
Alexander Lorenz

2008 ◽  
Vol 182 (2) ◽  
pp. 277-288 ◽  
Author(s):  
Ayumu Yamamoto ◽  
Kenji Kitamura ◽  
Daisuke Hihara ◽  
Yukinobu Hirose ◽  
Satoshi Katsuyama ◽  
...  

During mitosis, the spindle assembly checkpoint (SAC) inhibits the Cdc20-activated anaphase-promoting complex/cyclosome (APC/CCdc20), which promotes protein degradation, and delays anaphase onset to ensure accurate chromosome segregation. However, the SAC function in meiotic anaphase regulation is poorly understood. Here, we examined the SAC function in fission yeast meiosis. As in mitosis, a SAC factor, Mad2, delayed anaphase onset via Slp1 (fission yeast Cdc20) when chromosomes attach to the spindle improperly. However, when the SAC delayed anaphase I, the interval between meiosis I and II shortened. Furthermore, anaphase onset was advanced and the SAC effect was reduced at meiosis II. The advancement of anaphase onset depended on a meiosis-specific, Cdc20-related factor, Fzr1/Mfr1, which contributed to anaphase cyclin decline and anaphase onset and was inefficiently inhibited by the SAC. Our findings show that impacts of SAC activation are not confined to a single division at meiosis due to meiosis-specific APC/C regulation, which has probably been evolved for execution of two meiotic divisions.


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