[Review] Adaptation genomics: the next generation

出處: Trends in Ecology and Evolution, 2010, 25: 705-712

作者: Jessica Stapley1, Julia Reger1, Philine G.D. Feulner, Carole Smadja, Juan Galindo1, Robert Ekblom, Clair Bennison, Alexander D. Ball, Andrew P. Beckerman and Jon Slate

摘要

此篇review是第一篇整理next generation sequencing(NGS)於genome adaptation應用的文章。現在仍有許多困擾著生態遺傳學家的問題，舉例來說，有多少基因參與適應？當環境狀況改變時，genome適應的改變是否採用已經存在的變異或是必需要有新的突變產生？NGS資料將會協助回答這些難解的問題。

[Paper] Mutational dynamics and phylogenetic utility of noncoding chloroplast DNA

Authors: Borsch T and Quandt D
Source: Plant Systematics and Evolution (2009) 282:169-199.
Note:
The authors studied the mutational dynamics of introns and spacers in plastid genomes. They reviewed some of the well-known markers and the argued the usage of them for phylogenetic analysis. The bottom line is that the structural information is needed to be incorporated.
Also, they put up an erratum in PSE 2010 284:129. There are some mislabeling in Figure 1.

[Paper] Universal primer for chloroplast trnK/matK

Title: Universal primers for the amplification of the plastid trnK/matK region in land plants
Authors: Susann Wicke & Dietmar Quandt
Source: Anales del Jardin Botanico de Madrid (2009) 66:285-288.
Note:
I ran across this small paper talking about new primers for PCR of chloroplast trnK/matK of all land plants. They claimed these work for various land plants. Just try for yourself if you like.

[Paper] An Atlas of Type I MADS Box Gene Expression during Female Gametophyte and Seed Development in Arabidopsis

Authors: Marian Bemer, Klaas Heijmans, Chiara Airoldi, Brendan Davies and Gerco C. Angenent
Source: Plant Physiology (2010) 154:287-300.
Abstract:
Type I的MADS-box基因研究的人比較少，在阿拉伯芥中有61個copies，但是除了PHERES1, AGL80, DIANA, AGL62, AGL23之外，幾乎沒有什麼報導。主要的原因在於大部份T-DNA insertion的mutant沒有什麼phenotype。作者利用系統性的gene expression研究，顯示這些基因大多表現於female gametophyte和早期的seed development。相對於MIKCc-MADS genes，是蠻有意思的比較，也許和世代交替的改變有關連。

[Paper] Computational morphodyamics: a modeling framework to understand plant growth

Authors: Vijay Chickarmane, Adrienne H.K. Roeder, Paul T. Tarr, Alexandre Cunha, Cory Tobin, and Elliot M. Meyerowitz
Source: Annu. Rev. Plant Biology (2010) 61:65
Abstract:
這是一篇有關電腦模擬植物生長模式的review，作者們舉了很多的例子，說明目前modeling的應用性。Computer modeling在近幾年應用在植物生長，自細胞、個體、以至群聚模型上都有很大的進展。在不同參數的選擇下，可以模擬出各種發育的狀況。有興趣的人可以參考如CellModeller，OpenAlea等的網站，體驗一下這些新的工具。

[Paper] Land plant life cycle

Authors: Karl J. Niklas and Ulrich Kutschera
Journal: New Phytologist (2010) 185:27
Abstract:
A paper summarized the evolution of life cycle in land plants. 雖然是一篇review，但是在分子證據的解讀上，有一些錯誤，讀的時候要小心。

[Paper] Cryptic dioecy in Mussaenda pubescens (Rubiaceae): a species with stigma-height dimorphism

作者：Ai-Min Li, Xiao-Qin Wu, Dian-Xiang Zhang, and Spencer C. H. Barrett

出處: Annals of Botany （出版時間尚未確定）

摘要：

具有distyly特徵的玉葉金花，是不是一種隱性的雌雄異株(cryptic dioecy)？本篇文章結果顯示，具有長花柱型者花粉為無性，而短花柱型則不會結實，這代表了兩種花柱型的個體分別具有雌雄的功能。長花柱大孢子與雌配子體可正常發育，而花藥中的tepetal cell會提早瓦解，而導致雄不孕。相反地，短花柱中的小孢子及雄配子體發育正常，而大孢子及雌配子體在發育的各階段皆有退化的現象，無法形成正常的胚囊，雌不孕也因此產生。由此推論，玉葉金花的確是一種隱性的雌雄異株。