种田农民

 

玉米的分子进化研究可以说是Doelbley
J一个人的表演，其系统性，前瞻性无不让我佩服的五体投地。详细的参考我上一篇文章（从John
Doebley的研究历程谈如何读参考文献）这里就不多做解释.

 

110 Doebley JF, Gaut BS, Smith BD.  The
molecular genetics of crop domestication. Cell. 2006 Dec
29;127(7):1309-21
这是这方面最新和最经典的综述

 

111 Piperno DR, Flannery KV. The earliest archaeological maize
(Zea mays L.) from highland  Mexico: new
accelerator mass spectrometry dates and their implications. Proc
Natl Acad  Sci USA, 2001, 98: 2101-2103
玉米进化考古证据

 

112 Doebley J, Stec A, Hubbard L. The evolution of apical
dominance in maize. Nature, 1997, 386: 485-488
113 Vollbrecht E, Springer PS, Goh L, et al. Architecture of floral
branch systems in maize and related grasses. Nature, 2005,
436:1119-1126
114 Wang R L, Stec A, Hey J, Lukens L, Doebley J. The limits of
selection during maize domestication. Nature, 1999, 398:
236-239
115 Esteban B, George C, Erik V, et al. Ramosa2 encodes a lateral
organ boundary domain protein that determines the fate of stem
cells in branch meristems of maize. Plant Cell, 2006,
18:574-585
116 Gallavotti A, Zhao Q, Kyozuka J, et al. The role of barren
stalk1 in the architecture of maize. Nature, 2004,
432:630-635
一系列有进化相关基因或QTL被克隆，进化的方式也是越来越清晰，当然这个清单显然不完整。

 

117 Yamasaki M, Tenaillon MI, Vroh Bi I, Schroeder S,
Sanchez-Villeda H, Doebley JF, Gaut BS, McMullen MD: A large scale
screen for artificial selection in maize identifies candidate
agronomic loci for domestication and crop improvement. Plant Cell
2005, 17:2859-2872
118 Wright SI, Bi IV, Schroeder SG, Yamasaki M, Doebley JF,
McMullen MD, Gaut BS: The effects of artificial selection on the
maize genome. Science 2005, 308:1310-1314
基因组水平的研究，让进化上升到一个新的高度，上2篇文章是最新的进展。而玉米进化一共大约有1200个基因受到选择就出自下一篇文章。

 

 

我预测5年内中国也会在植物学领域开始热炒这个领域,
尽管目前我也做这个领域但知道的东西还很少.
尽管目前这个领域有很多人质疑,也确实有许多不成熟的地方,但必须承认其发展之势不可以阻挡.植物领域的领军人物当然是Buckler.

 

118 Yu J, Buckler ES. Genetic association mapping and genome
organization of maize.Curr Opin Biotechnol. 2006
Apr;17(2):155-60
简单清晰的综述文章,如果要做这个领域,当然是必读的.

 

119 杨小红，严建兵，郑艳萍，等。植物数量性状关联分析研究进展.
作物学报. 2006(on line first)
扫盲和入门文章,尽管还有不足之处,但也是迄今能找到这个领域的唯一中文综述.

 

 

120 Remington DL, Thornsberry JM,Matsuoka Y,Wilson LM,Whitt
SR,Doebley J, Kresovich S, 121Goodman MM, Buckler ES: Structure of
linkage disequilibrium and phenotypic associations in the maize
genome. Proc Natl Acad Sci USA 2001, 98:11479-11484.
早期的探讨

 

122 Thornsberry JM, Goodman MM, Doebley J, Kresovich S,
Nielsen D, Buckler ES IV: Dwarf8 polymorphisms associate with
variation in flowering time. Nat Genet 2001, 28:286-289.
看山之作,尽管后来不断有文章出来修订和赶紧,但动摇不了其地位.

 

123 Palaisa KA, Morgante M, Williams M, Rafalski A:
Contrasting effects of selection on sequence diversity and linkage
disequilibrium at two phytoene synthase loci. Plant Cell
2003,15:1795-1806
124 Wilson LM, Whitt SR, Ibanez-Carranza AM, Goodman MM, Rocheford
TR, Buckler ES: Dissection of maize kernel composition and starch
production by candidate gene association. Plant Cell 2004,
16:2719-2733.
几个实证研究, 都是相当的不错,当然这个清单可以很长.

 

125 Yu J, Pressoir G, Briggs WH, Bi IV, Yamasaki M, Doebley
JF,McMullen MD, Gaut BS, Holland JB, Nielsen D et al.: A unified
mixed-model method for association mapping accounting for multiple
levels of relatedness. Nat Genet 2005, 38: 203–208.
方法学的奠基之作,关键有界面友好的分析软件问世.

 

126 Price AL, Patterson NJ, Plenge RM, Weinblatt ME, Shadick
NA, et al. Principal components analysis corrects for
stratification in genome-wide association studies. Nat Genet.
2006;38:904–909
当然也会有人推荐这种方法,而不承认上面的论断.

 

127 Patterson N, Price AL, Reich D. Population Structure and
Eigenanalysis. PLoS Genet. 2006 Dec 22;2(12):e190
群体结构的分析方法讨论,如果从事该研究必须读.
  128 Aranzana MJ, Kim S, Lister C, Shindo C, Tang C, Toomajian C,
Zheng H, Dean C, Marjoram P, Nordborg M. An Arabidopsis Example of
Association Mapping in Structured Samples.Zhao K. PLoS Genet. 2007
Jan 19;3(1):e4
哪种方法更好,呵呵这是深入的比较和分析,值得读这篇文章.

13.基因组研究中的一些新技术运用

新技术总是不断涌现,呵呵,我也不是一个擅长的追跑者.但要明确的是技术是工具,要我所用,而不能为他所累.所以就不做详细介绍了.自己看吧

 

129 Rensink WA, Buell CR. Microarray expression profiling
resources for plant genomics. Trends Plant Sci. 2005, 10(12):
603-609
130 Ma J, Morrow DJ, Fernandes J, et al. Comparative profiling of
the sense and antisense transcriptome of maize lines. Genome Biol,
2006 , 13: 7(3): R22
131 Jiang K, Zhang S, Lee S, et al. Transcription profile analyses
identify genes and pathways central to root cap functions in maize.
Plant Mol Bio, 2006, 60(3): 343-363
这仅是在玉米中的应用,该领域的文章和综述可以用多如牛毛来形容.

 

呵呵,
某年考博士的题目,这里提供最早的文献,然后大家如果有兴趣,就可以用google从牛毛去了解牛喜欢吃什么草.
132 Stemmer WP. Rapid evolution of a protein in vitro by DNA
shuffling.
Nature. 1994 Aug 4;370(6488):389-91

 

这个领域的文章多如牛毛,随便挑了一篇.
133 Springer PS. Gene traps: tools for plant development and
genomics.Springer PS. Plant Cell. 2000 Jul;12(7):1007-20.

 

本来我很看好的,但好象发展并不快,先锋公司最早的参与者之一.

134 Hohn B, Puchta H.Gene therapy in plants. Proc. Natl. Acad.
Sci. USA,8321–8323, 1999
135 Yoon K, Cole-Strauss A, Kmiec EB. Proc Natl Acad Sci U S A 1996
Mar 5;93(5):2071-6  136 Zhu T, Peterson DJ, Tagliani L, St Clair G, Baszczynski CL,
Bowen B. Proc Natl Acad Sci U S A 1999 Jul 20;96(15):8768-73
137 Beetham PR, Kipp P.B, Sawycky XL, Arntzen CJ, May GD. Proc Natl
Acad Sci U S A 1999.96(15):8774-8

 

不依赖转基因的检测点突变的方法,反向遗传学研究中的新贵,
有相当的应用潜力 

138 An G, Jeong DH, Jung KH et al. Reverse genetic approaches
for functional genomics of rice. Plant Mol Biol. 2005
Sep;59(1):111-123
关于反向遗传学研究的综述
139 Gilchrist, E. J., and Haughn, G. W. (2005). TILLING without a
plough: a new method with applications for reverse genetics. Curr.
Opin. Plant Biol. 8, 1–5
140 Till, B. J., Reynolds, S. H., Weil, C., Springer, N., Burtner,
C., Young, K., Bowers, E., Codomo, C. A., Enns, L. C., Odden, A.
R., Greene, E. A., Comai, L., and Henikoff, S. (2004). Discovery of
induced point mutations in maize by TILLING. BMC Plant Biol. 4,
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