Disclaimer: I do not own Naruto, or anything associated with the manga, or anime. I only own this story.

Hey all, thanks for reading. I can't believe how well this story has done after two chapters. You guys rock. 9 reviews, 30 favorites, 42 followers, and 691 views. Thanks for all of the support, it really means a lot to me.

Raddaraddaradda2: I'm glad that you find my story so enjoyable, I will do my best to update as regularly as possible. I've done it three times this week, so hopefully I'll be able to keep it up.

Guest: I'll try to tell as much as I can as fast as I can.

Thunder18: Thanks for the review, I am glad you liked it.

Joe: I'll continue to update as frequently as I can.

Guest: I'm glad you like it, I'll do my best.

Ryanz Sylophan: I didn't think of Yakumo, so thanks for the suggestion. I decided to put her in my new poll. I agree that all three of your suggestions would make great support roles for the team. I think your English was just fine. Better than what I hear on a daily basis where I live.

In this chapter we will see how Hiruzen reacts to Naruto's return. You will also find out exactly what Orochimaru did to him, in a broad sense. I will go more in depth throughout the story. As I said before this story deviates from the canon story. This includes the ages of some of the characters. I will start to include ages after each chapter as I find it relevant. I hope you enjoy the chapter. Let me know what you think.

A Hero's DNA.

Chapter 2: Return to Konoha: The Prodigal Son Arrives.

Hiruzen sat at his desk looking over the shinobi mission reports that had come in the past few days. Ever since the discovery of Orochimaru's crimes, and his inevitable defection from the Hidden Leaf, the village had been in a state of shock. Not only had their Sanin hero been kidnapping their shinobi children, he had caused their deaths through gross experimentation. It was a betrayal that no one had seen coming.

He had also been shaken due to Kakashi's alleged identification of a child who may have been The Fourth Hokage's son. But there was no evidence to support the claim, mainly due to the fact that the boy couldn't be located as Orochimaru took him. Hiruzen didn't want to get his hopes up that the boy could be alive. HE didn't think he could bear that grief again.

On a more peculiar note, a message had been sent to him by one of his old students. Tsunade Senju, his prized medical specialist, had sent a note that informed him that she would be in the village on October 10th, which was today. He read the note again to see if he had missed anything.

Sensei,

Sealed in this note are a few samples of blood. I need you to have the village medical staff check it against all known shinobi records. It will probably take two days for their tests to be completed. I ask that all information regarding these samples be kept secret until I arrive. DO NOT READ THE RESULTS SENSEI. I will be arriving in the village on the 10th of October, in three days' time. Tsunade.

She didn't give him any reason as to why she was returning, or why she wanted those blood samples to be checked, not that he needed one, but she had before sworn to never enter Konoha again. She hated the village after the death of her brother Nawaki, and the love of her life Dan. He didn't care why she was coming, he was just happy to see her once more.

"Having fun there sensei?"

Hiruzen quickly turned in his chair to see a tall man with long spiky white hair, wooded sandals, a fishnet mesh shirt, green robe and pants, and red vest, as well as a forehead protector with the kanji for oil on it. He also had red face paint going down his face from his eyes.

"Jiraiya! You're here too?"

"So, you got Tsunade's message as well then. How does it feel to see all three of your students within the same week again sensei?" The man asked with a smile.

"It is great to see you again Jiraiya, it has been far too long."

"Well I've been keeping an eye out, looking around for the past few years."

"Still looking for Minato's son?"

"I refuse to accept that he is dead sensei. I just cannot have failed Minato and Kushina again."

"I know how you feel. I have felt the same way ever since we lost the three of them."

Jiraiya walked around Hiruzen's desk and sat in the chair directly across from his old sensei.

"Do you have any idea what she wanted?"

"Not a clue. I am frankly surprised that she sent a note at all."

"Same here. Tsunade hasn't spoken to me since the last time she caught me peeki….I mean researching for my next book."

"That reminds me, when is the next book going to be out?" Hiruzen asked with a slight blush.

"Hahaha, sensei you old pervert. I will have the next book in the Make Out Series out in stores in a few months."

"Well that's good to hear." He was happy that for even a few seconds he could forget about all of his stress and guilt over Naruto.

"So when should she be here?"

"Anytime now, anytime."

Jiraiya pointed to a sealed file atop his sensei's desk.

"What is that?"

"That is the reason for Tsunade's visit, and it is not to be opened until she arrives.

"Well I hope she gets here fast, those hot springs are calling my name, and so will the lucky ladies inside." The perverted sage said under his breath with a large smile on his face.

…

Tsunade, Shizune, and the blonde boy were walking down the dirt road through the Land of Fire. While the boy was unnaturally quiet for a child of his age, Tsunade was thinking about their conversation the other day after she had met him on that hilltop.

Flashback:

"Naruto?" Tsunade asked her voice a mixture of hope, fear, sadness, and shock. She didn't know if it was him, but a part of her wanted it to be him.

"Naruto? Who's Naruto?" The blonde asked. "Do you mean the main character from the famous book by the legendary Jiraiya?" His voice lit up and a smile stretched across his face.

Tsunade was floored by the question and she had only one prayer on her mind at that moment.

"You are far too young to be reading that kind of trash!"

"Trash?! How could you call The Tales of the Gutsy Ninja trash? It is my most favorite book in the world.

"Oh, that book." Tsunade let her breath catch up to her and she was glad that is wasn't one of his works of pure perversion. She continued to look at the boor with hope. HE was the right age, and that hair, even with the red in it, and that blue eye, made him look exactly like Minato. The shape of his face was definitely that of Kushina even if his skin was Ivory white.

"Are you ok Lady Tsunade?" The boy asked her in concern

"Yeah I'm fine, what is your name?"

"I don't really have one. Orochimaru just called me experiment 583." The boy said with a frown.

"Well what would you like me to call you?"

The boy though hard for a moment, and then his face lit up with a smile.

"Can you call me Naruto, I don't know why you said the name before but I really like it. He was my favorite character from Lord Jiraiya's masterpiece!"

Tsunade and Shizune couldn't help but smile.

"If that is what you want, then we shall call you Naruto." "I really hope it is you."

"Naruto how do you know about the Nine-Tailed Fox?" Shizune asked?

"Orochimaru told me all about it, and I talk to him. He is my only friend in the world. Unless, wait, are you my friends now?"

Tsunade smiled sadly. This boy has incredibly intelligent for his age and it was easy to forget exactly hold old he was. But at the end of the day he was still just a little kid.

"Yes Naruto we are your friends now."

…

Afterwards Tsunade had to convince Naruto to allow to take samples of his blood. But she had a really hard time as he was terrified of needles. She figure that is was a natural reflex due to the experimentation Orochimaru put him through. In the end she had to use medical ninjustsu to put him asleep while she collected the blood samples. She sent them to the Third Hokage in hopes of discovering Naruto's true identity.

When Naruto awoke he was initially mad at Tsunade but she explained to him that she just had to make sure that he was ok, and not sick. As his friend she needed to look out for him, and protect him. That seemed to make the boy smile again. He was happy to have friends who cared so much about him.

Flashback over.

Tsunade looked on ahead and saw the giant gates of Konoha, you could even see the Hokage's faces carved into the side of the mountain from where she stood.

"Naruto look, we're here."

"We are!" The blond kid grew excited at the prospect of being in Konoha. "I can see faces. Those are the Hokage stone faces right Lady Tsunade?!"

"That's right Naruto."

"Wow, I never thought they would be so massive."

Shizune just giggled at the blondes wonder. She found it incredibly cute. The group of three approached the gates to Konoha and Naruto was getting antsy. He wanted to run up and look at everything. As the young boy ran across the border of the Village someone yelled out to him.

"Hey kid, what do you think you're doing?"

Naruto looked over to see two ninja dressed in the standard Chunin attire sitting at a desk marked welcome station. He ran over to the desk with a smile.

"Naruto what are you doing?" Tsunade walked up behind him with Shizune not far behind.

"Lady Tsunade? You're here, in the Leaf village?" One of the two Chunin said shocked.

"That would be right. This is Shizune, and she is my apprentice, and this little runt here is Naruto. He is also with me."

"Alright, we just need you to sign these forms."

"Can Shizune handle that, IU have a meeting with the Hokage"

"Yes that is no problem."

"Shizune meet me in the Hokage's office."

"Yes Lady Tsunade."

As Tsunade and Naruto began to walk towards the Hokage's building. As they were walking Naruto looked all over at everything that he could see, soaking up as much information that he could gain visually. As they walked a shouting could be heard from ahead of them.

"Come on, brother, lease train with me?"

"Another time Sasuke, we don't have time to train at this second."

"No fair, I'm bored."

Ahead of them a Black haired boy was walking along with a much younger boy who was clearly his brother. As the older of the two looked ahead and saw Tsunade he stopped in his tracks.

"Lady Tsunade, it is a pleasure see you in person."

"Hello there and you are?"

The younger brother ran up before the older one had a chance to respond.

"That is my older brother Itachi Uchiha. He's eleven and he just made anbu."

Tsunade smiled and knelt down, as Itachi rolled his eyes at his brother's antics.

"Oh really, and who are you?"

"I'm Sasuke Uchiha and I'm six. I'm gonna be the next head of the Konoha Police Force."

"Are you really, well Sasuke, you know you shouldn't tell everyone you meet about your brother being in Anbu. It's supposed to be a secret."

Sasuke's face just paled, even more so than the already ivory skinned boy's color was.

"I didn't know that, I'm not in trouble am I?"

"No you're not."

Tsunade felt someone pulling at her pants, she looked down to see Naruto hiding behind her slightly. Sasuke noticed the little boy behind the strange woman.

"Who are you?" The young Uchiha asked somewhat forcibly.

Naruto didn't answer at first, not knowing whether or not he should trust the kid.

"Go on and answer him." Tsunade told him.

Naruto came out from behind her back and stepped towards Sasuke. He held out his hand to the Uchiha.

"I'm Naruto."

"How old are you Naruto?" Sasuke asked excited at the new kid in town.

Naruto's face slightly shifted as he frowned.

"I'm not sure, five or six, I think."

"You don't know how old you are? Are you stupid or something?" Sasuke asked.

"Sasuke, now that isn't nice." Itachi cut in.

"Oh, sorry Naruto." Sasuke said slightly sadden.

"It's ok Sasuke." Tsunade answered back. "I found Naruto by himself in the woods. "We are going to see if we can figure out how old he is right now."

"Can I come with you?" He asked excitedly.

Naruto also looked happy at the prospect of Sasuke coming along.

"Can he?"

"Sorry Naruto, not this time." Tsunade answered.

"Sasuke and I have to be heading home anyway. Maybe we will see you again soon though. Goodbye Lady Tsunade, goodbye Naruto." Itachi said as he grabbed Sasuke's hand.

"Bye Naruto." Sasuke said to his new friend.

"Bye Sasuke." Naruto responded.

Lady Tsunade, what are you doing in the middle of the street?" Shizune said as she ran up and met the two. "I thought that you would have been at the Hokage tower by now."

"We got a little sidetracked meeting a new friend, right Naruto."

"Yup." He answered.

"Well let's get moving, Lord Hokage is probably waiting for us." Shizune advised.

…

Hiruzen and Jiraiya sat in his office discussing many things as they waited for Tsunade. From news that spread throughout the shinobi nations, to Jiraiya's perverted exploits, their topic were never boring. Hiruzen smiled for the first time in a while with his old student.

"So did you ever master your sage mode?"

"Ugh no, I've been too busy for that serious of training."

"Busy with what Jiraiya?"

"You know, my research." The Toad sage said with a creepy grin.

A knocking came from the door.

"Yes?"

"Lord Hokage, you have some visitors."

"Send them in."

"Yes sir."

"Well it is about time." Jiraiya said a little too loudly. "Damn woman is always la..."

"What was that Jiraiya?"

He slowly turned around to see his old teammate glaring at him.

"Tsunade! Hey there, I was just saying how you were always la…lovely. Especially today. You look damn good."

"Good try Jiraiya."

Hiruzen couldn't help but chuckle at his students bickering. "Just like old times." He thought to himself.

"Well Tsunade what did you need to see me about?"

"Hello sensei, do you have the files from the medical teams."

"Yes they are right here." He handed the folder to Tsunade who grabbed it and ripped it open quickly.

"Thank you for not reading it sensei."

"I just did as you asked Tsunade."

As Tsunade read the detailed analysis of Naruto's blood work a slight smile came to her face and she began to cry. But as she read farther the smile slowly turned into a frown, and from a frown to full blown fire in her eyes. Tsunade Senju was pissed and the target of her anger was Orochimaru.

"That snake bastard!"

"What's wrong Tsunade?" Hiruzen and Jiraiya asked at the same time.

Tsunade closed the file as she finished reading it and wiped the tears from her eyes.

"First things first, Shizune please bring him in here."

"Who?" Jiraiya asked.

"Tsunade, who do you have with you?" Hiruzen questioned her.

"Just watch sensei."

Shizune opened the door and slowly brought Naruto into the Hokage's office. Jiraiya's face instantly turned from curiosity to full blown shock. Hiruzen felt tears coming to his eyes. He couldn't believe it.

"Naruto?" They both asked at the same time.

"Hey how did they know my name? I just made it." The blonde asked Tsunade.

"What do you mean you just made it?" Jiraiya asked.

"Ok I need the both of you to stay calm for a moment. I found Naruto here in the woods near the Land of Tea. He had no idea who he was, what his name was, or even how old he was. But he claimed to know who his father was and that he didn't want to go back to him."

"Who did he think was his father?" Hiruzen wanted answers and he wanted them now.

"Orochimaru is my father." Naruto said to the two older shinobi surprise.

"His hair, and eyes. How is this possible?" Hiruzen asked in shock,

"I think he just told us sensei." Jiraiya responded. "Orochimaru."

"Shizune, please take Naruto outside again and have him take a nap. He's probably tired.

"No I'm not." The boy said as he yaIwned and fought to keep his eyes open.

"Come on Naruto, let's let Tsunade and the other grown-ups talk ok."

"Ok." He said as he yawned again.

As the door closed Jiraiya stood up and drew a few seals around the room. HE then activated them turning the office into a secluded location, unable to be penetrated.

"So he has been with Orochimaru this entire time." Hiruzen said to himself. "Then Kakashi did in fact see him in there. Why didn't I believe him?"

"There is no way that you could have known sensei." Jiraiya told the sad old man. "Tsunade, what did he do to Naruto?"

"According to the DNA test I had done, that is most definitely Minato and Kushina's son. There is no mistaking that fact."

"Ok."

"But there was a strange irregularity in his DNA composition. It seems that Orochimaru somehow combined Naruto's DNA with the DNA of others."

"But who? Hiruzen asked.

"Well first off Naruto already had the genetic traits of the Uzumaki clan and of Minato Namikaze. Orochimaru managed to acquire cells from Hashirama Senju, Tobirama Senju and Madara Uchiha as well as Mito Uzumaki. He injected Naruto with their cells and it had drastic effects on Naruto's DNA code. You can see the external effects. His Ivory white skin, a common trait of the Uchiha clan. His Yellow hair has turned red in many places, that is the extra Uzumaki cells at work, and then his green eye seems to have a connection to Senju DNA."

"I can't believe it." Jiraiya was pissed off beyond all measure. "The absolute torture he must have put him through. How did he survive it?"

"The fox." Hiruzen said "Minato sealed the whole fox into him. His regeneration abilities must be extreme."

"But that should have killed him." Jiraiya explained.

"Unless Orochimaru already began his tampering even before he was born." Hiruzen clarified.

"That Snake Bastard!" Tsunade was absolutely livid.

"What about internal changes Tsunade?" Jiraiya asked.

"His physical conditioning is perfect. He is fast and strong for his age. But the truth is, we have no idea how all of this will end up affecting him. WE have never had a situation like this before."

"We will discuss this more later, for now Jiraiya release the seals please."

"You got it sensei."

Jiraiya placed his hand on one of the seals and they all seemed to disappear. As they opened the door they were surprised to see the members of the Hidden Leaf Council standing in the door way.

"Hello Tsunade, how good of you too have come back." A man with bandages around his eye and a missing arm said.

"Danzo, what is the meaning of this?" Hiruzen questioned his old friend.

"We received reports that two of our Sannin had returned and now we find a strange child as well. Hiruzen You have been keeping secrets from us, we have called a village council meeting and we expect you all to be there."

"Michio, Homura, Koharu, you all agree?"

"I'm sorry Hiruzen, but Danzo showed us the files on the boy." Michio said to his old friend

"What, that was not public information!" Tsunade yelled angrily.

"And the public hasn't yet seen it Princess Tsunade, but you had no right keeping that information form the council, so now they have all been informed."

"We will discuss this later Danzo, this isn't over."

"Oh I wouldn't dream of Hit Hiruzen."

…

In the Hospital Tenzo was unconscious and lying down in his bed. Next to him was a small Bonsai tree left by Kakashi. As the teen gently kept a steady breath in his sleep his chakra began to flare. The Bonsai tree began to grow ever so slightly. His eyes opened revealing a forest green glow.

…

Thank you all for reading. I have created a poll for the third team member of squad 7, which you can find on my profile. Everyone gets two votes from the list, and I ask that everyone votes. The poll will be closed on June 13th. Please review, I love hearing from you guys, and it makes me want to update faster. Until next time.

Next Chapter: Naruto's Fate: The Leaf Councils Judgment.

Ages and rank

Naruto: 6 Civilian

Shizune: 15 Chunin

Tsunade: 45 Sanin

Jiraiya: 45 Sanin

Kakashi: 20 Jonin/Anbu Captain

Hiruzen: 62 Kage

Itachi: 11 Jonin/ Anbu

Sasuke: 6 Civilian

Tenzo/Yamato: 13 Chunin