Microbial diversity in the phyllosphere and rhizosphere of an apple orchard managed under prolonged “Natural Farming” practices

Ying-Hong He, Charith Raj Adkar-Purushothama, Tsutae Ito, Asuka Shirakawa, Hideki Yamamoto, Akiko Kashiwagi*, Ayumu Tatewaki, Misato Fujibayashi, Shuichi Sugiyama, Katsuhiko Yaginuma, Tomoya Akahira, Shingen Yamamoto, Seiya Tsushima, Yuko Matsushita and Teruo Sano

Microorganisms   9 ( 10 )   2056   2021.9

The single-stranded RNA bacteriophage Qβ adapts rapidly to high temperatures: an evolution experiment

Md. Tanvir Hossain, Toma Yokono and Akiko Kashiwagi

Viruses-Basel   12 ( 6 )   638   2020.6

Complete genomic sequence of Pseudomonas lactis bacteriophage HU1 isolated from raw cow's milk.

Tanaka C, Nakayama T, Toba T, Kashiwagi A

Archives of virology   165 ( 1 )   215 - 217   2020.1

フラスコの中で変異と選択を繰り返す実験進化:酵素の機能改変から生物進化の仮説検証まで

柏木 明子

化学と生物   58 ( 4 )   202 - 203   2020

Influence of adaptive mutations, from thermal adaptation experiments, on the infection cycle of RNA bacteriophage Qβ.

Akiko Kashiwagi, Tamami Kadoya, Naoya Kumasaka, Tomofumi Kumagai, Fumie Sano Tsushima, Tetsuya Yomo

Archives of virology   163 ( 10 )   2655 - 2662   2018.10

A Lytic Bacteriophage for Controlling Pseudomonas lactis in Raw Cow's Milk.

Tanaka C, Yamada K, Takeuchi H, Inokuchi Y, Kashiwagi A, Toba T

Applied and environmental microbiology   84 ( 18 )   2018.9

Characterization of a single mutation in TraQ in a strain of Escherichia coli partially resistant to Qβ infection

Akiko Kashiwagi, Hikari Kitamura, Fumie Sano Tsushima

Frontiers in Microbiology   6   124   2015.2

Contribution of silent mutations to thermal adaptation of RNA bacteriophage Qβ.

Kashiwagi A, Sugawara R, Sano Tsushima F, Kumagai T, Yomo T

Journal of virology   88 ( 19 )   11459 - 68   2014.10

Adaptation of a cyanobacterium to a biochemically rich environment in experimental evolution as an initial step toward a chloroplast-like state

Hosoda K, Habuchi M, Suzuki S, Miyazaki M, Takikawa G, Sakurai T, Kashiwagi A, Sueyoshi M, Matsumoto Y, Kiuchi A, Mori K, Yomo T.

PLoS ONE   9 ( 5 )   e98337   2014.5

Quantitative comparison of the RNA bacteriophage Qβ life cycle in rich and minimal media

Tomonori Inomata, Hitomi Kimura, Haruki Hayasaka, Akinori Shiozaki, Yasuhiro Fujita, Akiko Kashiwagi

Archives of Virology   2012.7

Ongoing phenotypic and genomic changes in experimental coevolution of RNA bacteriophage Qβ and Escherichia coli

Akiko Kashiwagi, Tetsuya Yomo

PLoS Genetics   7 ( 8 )   2011.8

Adaptation by stochastic switching of a monostable genetic circuit in Escherichia coli

Saburo Tsuru, Nao Yasuda, Yoshie Murakami, Junya Ushioda, Kotaro Mori, Akiko Kashiwagi, Shingo Suzuki, Bei-Wen Ying, Tetsuya Yomo

Molecular Systems Biology   7   2011.3

Cooperative adaptation to establishment of a synthetic bacterial mutualism

Kazufumi Hosoda, Shingo Suzuki, Yoshinori Yamauchi, Yasunori Shiroguchi, Akiko Kashiwagi, Naoaki Ono, Kotaro Mori, Tetsuya Yomo

PLoS ONE   6 ( 2 )   2011.2

Transition from positive to neutral in mutation fixation along with continuing rising fitness in thermal adaptive evolution

Toshihiko Kishimoto, Leo Iijima, Makoto Tatsumi, Naoaki Ono, Ayana Oyake, Tomomi Hashimoto, Moe Matsuo, Masato Okubo, Shingo Suzuki, Kotaro Mori, Akiko Kashiwagi, Chikara Furusawa, Bei-Wen Ying, Tetsuya Yomo

PLoS Genetics   6 ( 10 )   2010.10

Still alive

88 ( 4 )   184 - 185   2010.4

弘前大学の生物工学会会員です(北日本支部,Branch Spirit)

柏木 明子, 園木 和典

生物工学会誌 : seibutsu-kogaku kaishi   88 ( 6 )   2010

Noisy cell growth rate leads to fluctuating protein concentration in bacteria.

Tsuru S, Ichinose J, Kashiwagi A, Ying BW, Kaneko K, Yomo T

Physical biology   6 ( 3 )   036015   2009.6

Evolution of carrying capacity in evolution experiments focusing on a single locus on the Escherichia coli chromosome

Kotaro Mori, Akiko Kashiwagi, Itaru Urabe and Tetsuya Yomo

BioSystems   95 ( 2 )   114 - 119   2009.2

Construction of Escherichia coli gene expression level perturbation collection.

Kashiwagi A, Sakurai T, Tsuru S, Ying BW, Mori K, Yomo T

Metabolic engineering   11 ( 1 )   56 - 63   2009.1

1P-241 2種の栄養要求性大腸菌からなる人工相利共生系において観察される協力的な適応的表現型可塑性(生態/環境,第47回日本生物物理学会年会)

Hosoda Kazufumi, Mori Kotaro, Kashiwagi Akiko, Suzuki Shingo, Yomo Tetsuya

生物物理   49 ( 0 )   2009

2P-143 栄養枯渇に対する適応応答における遺伝子発現の確率性(細胞生物的課題(接着,運動,骨格,伝達,膜),第47回日本生物物理学会年会)

Tsuru Saburo, Ying Bei-Wen, Mori Kotaro, Ushioda Junya, Kashiwagi Akiko, Yomo Tetsuya

生物物理   49 ( 0 )   2009

An improved physico-chemical model of hybridization on high-density oligonucleotide microarrays.

Ono N, Suzuki S, Furusawa C, Agata T, Kashiwagi A, Shimizu H, Yomo T

Bioinformatics (Oxford, England)   24 ( 10 )   1278 - 85   2008.5

Phenotypic plasticity of Escherichia coli at initial stage of symbiosis with Dictyostelium discoideum.

Yamada A, Matsuyama S, Todoriki M, Kashiwagi A, Urabe I, Yomo T

Bio Systems   92 ( 1 )   1 - 9   2008.4

An improved physico-chemical model of hybridization on high-density oligonucleotide microarrays

Naoki Ono, Shingo Suzuki, Chikara Furusawa, Tomoharu Agata, Akiko Kashiwagi, Hiroshi Shimizu and Tetsuya Yomo

Bioinformatics   24 ( 10 )   1278 - 1285   2008.3

3P-284 大腸菌と細胞性粘菌からなる共生コロニー目形成過程における大腸菌の詳細な遺伝子発現解析(生命の起源・進化,第46回日本生物物理学会年会)

Kihara Kumiko, Mori Kotaro, Ono Naoki, Suzuki Shingo, Kashiwagi Akiko, Furusawa Chikara, Yomo Tetsuya

生物物理   48 ( 0 )   2008

Analysis of fluctuation in protein abundance without promoter regulation based on Escherichia coli continuous culture.

Yamada T, Furusawa C, Nagahisa K, Kashiwagi A, Yomo T, Shimizu H

Bio Systems   90 ( 3 )   614 - 22   2007.11

Experimental optimization of probe length to increase the sequence specificity of high-density oligonucleotide microarrays

Shingo Suzuki, Naoki Ono, Chikara Furusawa, Akiko Kashiwagi and Tetsuya Yomo

BMC Genomics   8   373   2007.10

Insight into the sequence specificity of a probe on an Affymetrix GeneChip by titration experiments using only one oligonucleotide

Shingo Suzuki, Chikara Furusawa, Naoki Ono, Akiko Kashiwagi, Itaru Urabe and Tetsuya Yomo

BIOPHYSICS   3   47 - 56   2007.9

Analysis of Fluctuation in Protein Abundance without Promoter Regulation based on Escherichia coli Continuous Culture

Tadashi Yamada, Chikara Furusawa, Keisuke Nagahisa, Akiko Kashiwagi, Tetsuya Yomo, and Hiroshi Shimizu

BioSystems   90 ( 3 )   614 - 622   2007.2

2E10-3 Construction of Escherichia coli Gene Expression Level Perturbation Collection

KASHIWAGI Akiko, SAKURAI Takahiro, MORI Kotaro, YOMO Tetsuya

19   2007

1P234 大腸菌と細胞性粘菌の実験室内共生系における大腸菌の遺伝子発現ダイナミクス解析(生命情報科学(機能ゲノミクス),ポスター発表,第45回日本生物物理学会年会)

木原 久美子, 小野 直亮, 鈴木 真吾, 柏木 明子, 古澤 力, 四方 哲也

生物物理   47 ( 0 )   2007

Adaptive Response of a Gene Network to Environmental Changes by Fitness-induced Attractor Selection

Akiko Kashiwagi, Itaru Urabe, Kunihiko Kaneko and Tetsuya Yomo

Plos ONE   1 ( 1 )   e49 - e49   2006.12

Inherent Characteristics of Gene Expression for Buffering Environmental Changes

Takao Suzuki, Akiko Kashiwagi, Itaru Urabe and Tetsuya Yomo

BIOPHYSICS   2   63 - 70   2006.11

Analysis of fluctuation in gene expression based on continuous culture system

Tadashi Yamada, Makoto Sadamitsu, Keisuke Nagahisa, Akiko Kashiwagi, Chikara Furusawa, Tetsuya Yomo, and Hiroshi Shimizu

Bio-ADIT 2006   113 - 127   2006.6

Inherent characteristics of gene expression for buffering environmental changes without the corresponding transcriptional regulations.

Suzuki T, Kashiwagi A, Urabe I, Yomo T

Biophysics (Nagoya-shi, Japan)   2   63 - 70   2006

Ubiquity of log-normal distributions in intra-cellular reaction dynamics

Chikara Furusawa, Takao Suzuki, Akiko Kashiwagi, Tetsuya Yomo and Kunihiko Kaneko

BIOPHYSICS   1   25 - 31   2005.4

History dependent effects on phenotypic expression of a newly emerged gene.

Suzuki T, Kashiwagi A, Mori K, Urabe I, Yomo T

Bio Systems   77 ( 1-3 )   137 - 41   2004.11

Analysis of Cell Population Dynamics in Continuous Culture of Escherichia coli

Tadashi Yamada, Kouichi.Maeoka, Akiko Kashiwagi, Keisuke Nagahisa,

Proceeding of Asian Pacific Confederation of Chemical Engineering   3P ( 01 )   087   2004.10

Calcr, a brain-specific imprinted mouse calcitonin receptor gene in the imprinted cluster of the proximal region of chromosome 6.

Hoshiya H, Meguro M, Kashiwagi A, Okita C, Oshimura M

Journal of human genetics   48 ( 4 )   208 - 11   2003

Plasticity of fitness and diversification process during an experimental molecular evolution

Akiko Kashiwagi, Wataru Noumachi, Masato Katsuno, Mohammad. T. Alam, Itaru Urabe and Tetsuya Yomo

Journal of Molecular Evolution   52 ( 6 )   502 - 509   2001.6

How small can the difference among competitors be for coexistence to Occur

Akiko Kashiwagi, Tadashi Kanaya, Tetsuya Yomo, and Itaru Urabe

Researches on Population Ecology   40 ( 2 )   223 - 226   1998.6

Fate of a mutant emerging at the initial stage of evolution

Xu Wei.-Zhong., Akiko Kashiwagi, Tetsuya Yomo, and Itaru Urabe

Researches on Population Ecology   38 ( 2 )   231 - 237   1996.6

生命システム探求への構成的アプローチにおけるBD FACS™フローサイトメーターの応用

森　光太郎、角南　武志、伊藤　洋一郎、柏木　明子、四方　哲也

BD Biosciences Cell Analysis Science Avanzato   4   2009.4

Dynamic Behavior of Cell Distribution in Continuous Culture of Escherichia coli

Tadashi Yamada, Kohei Maeoka, Akiko Kashiwagi, Keisuke Nagahisa, Chikara Furusawa, Suteaki Shioya, Tetsuya Yomo, Hiroshi Shimizu

ソフトウエアバイオロジー   4   31 - 36   2005.3